File: matrix.dat

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VV  TRANSFAC MATRIX TABLE, V.2.424-08-1995
XX
//
AC  M00001
XX
ID  V$MYOD_01
XX
NA  MyoD
XX
DT  EWI (created); 19.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     1     2     2     0
04     2     1     2     0
05     3     0     1     1
06     0     5     0     0
07     5     0     0     0
08     0     0     4     1
09     0     1     4     0
10     0     0     0     5
11     0     0     5     0
12     0     1     2     2
13     0     2     0     3
14     1     0     3     1
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00526; MyoD                         ; mouse
XX
BA  5 functional elements in 3 genes
XX
XX
//
AC  M00002
XX
ID  V$E47_01
XX
NA  E47
XX
DT  EWI (created); 19.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     4     4     3     0
04     2     5     4     0
05     3     2     4     2
06     2     0     9     0
07     0    11     0     0
08    11     0     0     0
09     0     0    11     0
10     1     2     8     0
11     0     0     0    11
12     0     0    11     0
13     0     0     4     7
14     1     4     3     3
15     1     6     2     2
16     1     4     4     2
17     1     4     2     3
XX
BF  T00207; E47                          ; human
XX
BA  11 selected strong binding sites for E47, E47-MyoD, E12+MyoD and (weak) for E12
XX
CC  Group I in [903]; 5 sites selected in vitro for binding to E12N 
CC  (=N-terminally truncated E12); matrix corrected according to 
CC  the published sequences
XX
RN  [1]
RA  Sun X.-H., Baltimore D.
RT  An inhibitory domain of E12 transcription factor prevents DNA 
RT  binding in E12 homodimers but not in E12 heterodimers
RL  Cell 64:459-470 (1991).
XX
//
AC  M00003
XX
ID  V$VMYB_01
XX
NA  v-Myb
XX
DT  EWI (created); 19.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     0     0     0     0
04    14     3     4     3
05    13     3     5     3
06     2     7     1    14
07    24     0     0     0
08    24     0     0     0
09     0    24     0     0
10     1     0    17     6
11     0     1    22     1
12    12     5     3     4
13    11     5     2     6
14     0     0     0     0
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00895; v-Myb                        ; AMV
XX
BA  21 sites isolated from total chromatin + 3 sites from mim-1 promoter
XX
RN  [1]
RA  Biedenkapp H., Borgmeyer U., Sippel A., Klempnauer K.-H.
RT  Viral myb oncogene encodes a sequence-specific DNA-binding activity
RL  Nature 335:835-837 (1988).
RN  [2]
RA  Ness S. A., Marknell A., Graf T.
RT  The v-myb oncogene product binds to and activates the promyelocyte-specific 
RT  mim-1 gene
RL  Cell 59:1115-1125 (1989).
XX
//
AC  M00004
XX
ID  V$CMYB_01
XX
NA  c-Myb
XX
DT  EWI (created); 19.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1    12     6     8
02     6    15     5     1
03     6    10     9     5
04    16     5    14     3
05    16    11     8     2
06     9    16     8    16
07     8     4    34     5
08    20     1    25     5
09     4    49     2     5
10    18    18    20     4
11     0     0    60     0
12     0     0     0    60
13     0     0     0    60
14    11     1    47     1
15     6     6    21     5
16     1     7    15    11
17     2     2    12     4
18     1     0    11     1
XX
BF  T00138; c-Myb                        ; mouse
XX
BA  9 c-Myb binding sites in SV40 DNA + 51 selected single binding sites
XX
CC  Matrix of [905] has been inverted to be compatible
XX
RN  [1]
RA  Nakagoshi H., Nagase T., Kanei-Ishii C., Ueno Y., Ishii S.
RT  Binding of the c-myb proto-oncogene product to the simian virus 
RT  40 enhancer stimulates transcription
RL  J. Biol. Chem. 265:3479-3483 (1990).
RN  [2]
RA  Howe K. M., Watson R. J.
RT  Nucleotide preferences in sequence-specific recognition of DNA 
RT  by c-myb protein
RL  Nucleic Acids Res. 19:3913-3919 (1991).
XX
//
AC  M00005
XX
ID  V$AP4_01
XX
NA  AP-4
XX
DT  EWI (created); 19.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     0     0     2
02     1     1     3     0
03     3     1     1     0
04     2     1     2     0
05     1     2     0     2
06     0     5     0     0
07     5     0     0     0
08     0     0     5     0
09     0     5     0     0
10     0     0     1     4
11     0     1     4     0
12     0     2     1     2
13     1     0     3     1
14     0     0     5     0
15     1     1     1     2
16     1     4     0     0
17     2     1     1     1
18     0     0     3     2
XX
BF  T00036; AP-4                         ; human
XX
BA  5 elements from 5 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Mermod N., Williams T. J., Tjian R.
RT  Enhancer binding factors AP-4 and AP-1 act in concert to activate 
RT  SV40 late transcription in vitro
RL  Nature 332:557-561 (1988).
XX
//
AC  M00006
XX
ID  V$MEF2_01
XX
NA  MEF-2
XX
DT  EWI (created); 19.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     3     1     1
02     0     0     1     4
03     0     4     0     1
04     0     0     0     5
05     5     0     0     0
06     5     0     0     0
07     5     0     0     0
08     5     0     0     0
09     5     0     0     0
10     0     0     0     5
11     5     0     0     0
12     5     0     0     0
13     0     5     0     0
14     0     2     0     3
15     0     4     0     1
16     0     2     0     3
17     0     0     0     0
XX
BF  T00505; MEF-2                        ; mouse
BF  T01004; MEF-2                        ; rat
BF  T01005; MEF-2                        ; human
XX
BA  5 elements from 2 different genes (mouse/human/rat mck; rat/chicken mlc)
XX
CC  compiled sequences
XX
RN  [1]
RA  Gossett L. A., Kelvin D. J., Sternberg E. A., Olson E. N.
RT  A new myocyte-specific enhancer-binding factor that recognizes 
RT  a conserved element associated with multiple muscle-specific genes
RL  Mol. Cell. Biol. 9:5022-5033 (1989).
XX
//
AC  M00007
XX
ID  V$ELK1_01
XX
NA  Elk-1
XX
DT  EWI (created); 27.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     1     1     1     1
03     2     0     1     1
04     2     1     1     0
05     3     0     1     0
06     0     3     1     0
07     2     2     0     0
08     0     0     4     0
09     0     0     4     0
10     4     0     0     0
11     3     0     0     1
12     0     0     4     0
13     0     1     0     3
14     1     1     1     1
15     1     3     0     0
16     1     1     2     0
17     1     1     0     2
XX
BF  T00250; Elk-1                        ; human
XX
BA  4 functional and binding elements from 4 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Dalton S., Treisman R.
RT  Characterization of SAP-1, a protein recruited by serum response 
RT  factor to the c-fos serum response element
RL  Cell 68:597-612 (1992).
RN  [2]
RA  Rao V. N., Reddy E. Sh. P.
RT  A divergent ets-related protein, Elk-1, recognizes similar c-ets-1 
RT  proto-oncogene target sequences and acts as a transcriptional 
RT  activator
RL  Oncogene 7:65-70 (1992).
XX
//
AC  M00008
XX
ID  V$SP1_01
XX
NA  Sp1
XX
DT  EWI (created); 27.10.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     0     0     0     0
04     2     1     6     2
05     3     1     6     1
06     0     0    11     0
07     0     0    11     0
08     0     8     2     1
09     3     0     6     2
10     0     1     7     3
11     1     0     8     2
12     1     2     7     1
13     3     2     0     6
14     0     0     0     0
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00759; Sp1                          ; human
XX
BA  11 sites selected by TDA
XX
RN  [1]
RA  Thiesen H.-J., Bach Ch.
RT  Target detection assay (TDA): a versatile procedure to determine 
RT  DNA binding sites as demonstrated on SP1 protein
RL  Nucleic Acids Res. 18:3202- (1990).
XX
//
AC  M00009
XX
ID  I$TTK69_01
XX
NA  Ttk 69K
XX
DT  EWI (created); 03.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     0     0     0     0
04     0     0     0     0
05     0     0     4     0
06     0     1     3     0
07     0     0     0     4
08     0     4     0     0
09     0     4     0     0
10     0     0     0     4
11     0     0     4     0
12     0     3     1     0
13     0     0     0     0
14     0     0     0     0
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00843; Ttk 69K                      ; fruit fly
XX
BA  4 elements of the eve gene
XX
CC  compiled sequences
XX
RN  [1]
RA  Read D., Manley J. L.
RT  Alternatively spliced transcripts of the Drosophila tramtrack 
RT  gene encode zinc finger proteins with distinct DNA binding sp
RT  ecificities
RL  EMBO J. 11:1035-1044 (1992).
XX
//
AC  M00010
XX
ID  P$O2_01
XX
NA  O2 (Opaque-2)
XX
DT  EWI (created); 09.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0     8
02     0     8     0     0
03     8     0     0     0
04     0     0     0     7
05     0     0     0     8
06     0     8     0     0
07     0     8     0     0
08     8     0     0     0
09     1     7     0     0
10     1     0     7     0
11     0     0     0     8
12     8     0     0     0
13     0     0     7     1
14     8     0     0     0
15     0     0     0     8
16     4     0     3     1
17     0     0     0     0
XX
BF  T00668; opaque-2                     ; maize
XX
BA  8 O2 target sites out of 8 maize 22-kD zein genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Schmidt R. J., Ketudat M., Aukerman M. J., Hoschek G.
RT  Opaque-2 is a transcriptional activator that recognizes a specific 
RT  target site in 22-kD zein genes
RL  Plant Cell 4:689-700 (1992).
XX
//
AC  M00011
XX
ID  V$EVI1_06
XX
NA  Evi-1
XX
DT  EWI (created); 09.11.92.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     0     0     0     0
04    16     0     0     0
05     0    16     0     0
06    15     0     0     1
07    16     0     0     0
08     0     0    16     0
09    16     0     0     0
10     0     0     0    16
11    15     0     0     1
12    12     1     3     0
13     0     0     0     0
14     0     0     0     0
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00273; Evi-1                        ; mouse
XX
BA  16 sites selected from random oligonucleotides
XX
RN  [1]
RA  Perkins A. S., Fishel R., Jenkins N. A., Copeland N. G.
RT  Evi-1, a murine zinc finger proto-oncogene, encodes a sequence-specific 
RT  DNA-binding protein
RL  Mol. Cell. Biol. 11:2665-2674 (1991).
XX
//
AC  M00012
XX
ID  I$CF2II_01
XX
NA  CF2-II
XX
DT  EWI (created); 10.11.92.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     0     0     0     0
04     0     0     0     0
05    33    15    51     1
06     0     6     0    94
07    94     0     6     0
08     0     8     4    88
09    94     2     4     0
10     1     4     0    95
11    51     3    41     5
12     2    13     2    83
13    63     6    26     5
14     0     0     0     0
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00120; CF2-II                       ; fruit fly
XX
BA  80 binding sites selected from random oligonucleotides; 4th cycle
XX
RN  [1]
RA  Gogos J. A., Hsu T., Bolton J., Kafatos F. C.
RT  Sequence discrimination by alternatively spliced isoforms of 
RT  a DNA binding Zinc finger domain
RL  Science 257:1951-1954 (1992).
XX
//
AC  M00013
XX
ID  I$CF2II_02
XX
NA  CF2-II
XX
DT  EWI (created); 10.11.92.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     0     0     0     0
04     0     0     0     0
05    26     4    67     0
06     0     7     0    93
07    94     0     6     0
08     0     9     1    90
09    96     1     3     0
10     0     4     0    96
11    70     3    26     1
12     3     7     0    90
13    81     0    16     3
14     0     0     0     0
15     0     0     0     0
16     0     0     0     0
17     0     0     0     0
XX
BF  T00120; CF2-II                       ; fruit fly
XX
BA  70 binding sites selected from random oligonucleotides; 5th cycle
XX
RN  [1]
RA  Gogos J. A., Hsu T., Bolton J., Kafatos F. C.
RT  Sequence discrimination by alternatively spliced isoforms of 
RT  a DNA binding Zinc finger domain
RL  Science 257:1951-1954 (1992).
XX
//
AC  M00014
XX
ID  F$REPCAR1_01
XX
NA  (repressor of CAR1 expression)
XX
DT  EWI (created); 13.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     2     3     3     4
02     5     2     2     3
03     2     5     4     4
04     1     0     2    12
05    14     0     0     1
06     2     0    13     0
07     0    15     0     0
08     0    15     0     0
09     2     0    12     1
10     0    14     1     0
11     0    13     2     0
12     5     2     7     1
13    10     2     2     1
14     6     3     5     1
15     6     2     7     0
16     4     4     5     1
17     4     5     4     1
XX
BF  T00726; repressor of CAR1 expression ; yeast
XX
BA  15 elements; 1 repressing element (CAR1 gene) and 14 homologous binding sites
XX
CC  compiled sequences
XX
RN  [1]
RA  Luche R. M., Sumrada R., Cooper T. G.
RT  A cis-acting element present in multiple genes serves as a repressor 
RT  protein binding site for the yeast CAR1 gene
RL  Mol. Cell. Biol. 10:3884-3895 (1990).
XX
//
AC  M00015
XX
ID  F$ABF1_01
XX
NA  ABF1
XX
DT  EWI (created); 16.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     7     6     3     7
02     6    10     4     4
03    13     0     4     7
04     4     6     4    10
05    15     0     9     0
06     0     0     1    23
07     1    23     0     0
08    18     0     5     1
09     0    10     0    14
10     1     3     4    16
11    11     4     3     6
12     4     4     1    15
13    13     2     4     5
14     6     5     5     8
15    24     0     0     0
16     0    24     0     0
17     0     0    24     0
18    10     0     6     8
19    12     3     5     4
20     9     5     3     6
21     6     7     6     4
22     7     4     2    10
XX
BF  T00056; BAF1                         ; yeast
XX
BA  24 identified genomic binding sites for ABF1-related factors
XX
CC  compiled sequences
XX
RN  [1]
RA  Della Seta F., Treich I., Buhler J.-M., Sentenac A.
RT  ABF1 binding sites in yeast RNA polymerase genes
RL  J. Biol. Chem. 265:15168-15175 (1990).
XX
//
AC  M00016
XX
ID  I$E74A_01
XX
NA  E74A
XX
DT  EWI (created); 17.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     4     5     2     3
02     3     3     6     2
03    11     1     2     1
04    11     0     2     3
05     2     7     2     6
06     2    12     2     1
07     5    12     0     0
08     0     0    17     0
09     0     0    17     0
10    17     0     0     0
11    17     0     0     0
12     5     1    10     1
13     1     2     1    11
14     3     2     7     3
15     5     3     4     3
16     2     1     6     5
17     2     3     6     1
XX
BF  T00208; E74A                         ; fruit fly
XX
BA  17 recognition sequences selected from random oligonucleotides
XX
RN  [1]
RA  Urness L. D., Thummel C. S.
RT  Molecular interactions within the ecdysone regulatory hierarchy: 
RT  DNA binding properties of the Drosophila ecdysone-inducible 
RT  E74A protein
RL  Cell 63:47-61 (1990).
XX
//
AC  M00017
XX
ID  V$ATF_01
XX
NA  ATF
XX
DT  EWI (created); 17.11.92.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     0     0     0     0
02     0     0     0     0
03     5    14     2     4
04     2     6     8     9
05     3    10    10     2
06     0     0     0    25
07     0     0    25     0
08    25     0     0     0
09     0    25     0     0
10     0     0    25     0
11     4     2     1    18
12     7    11     3     4
13     9     1     7     8
14     6     7     7     5
15     1    11     4     9
16     2    13     5     5
17     0     0     0     0
XX
BA  25 known binding sites in 15 genes
XX
CC  slightly differing from E4 consensus
XX
RN  [1]
RA  Rooney R. J., Raychaudhuri P., Nevins J. R.
RT  E4F and ATF, two transcription factors that recognize the same 
RT  site, can be distinguished both physically and functionally: 
RT  a role for E4F in E1A trans activation
RL  Mol. Cell. Biol. 10:5138-5149 (1990).
XX
//
AC  M00018
XX
ID  I$UBX_01
XX
NA  Ubx
XX
DT  EWI (created); 30.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     4     4    12     7
02     9     5     8     8
03     9     7    14     4
04     7     7    20     7
05    12     9    18     6
06     9    18    16    12
07     9    13     8    32
08     3     0     0    76
09    74     3     3     6
10    85     0     2     1
11     0     3     3    82
12     8     4    41    21
13    13     3    41     2
14     9    23    17     8
15     6    17    11    20
16    11    11     4    22
17     9    14     7    11
18     6     5    15     4
19     4     3     7    10
XX
BF  T00863; Ubx                          ; fruit fly
XX
BA  88 selected binding sequences
XX
CC  3 rounds of binding and amplification of random dodekamers bound 
CC  to the bacterially expressed Ubx homeodomain
XX
RN  [1]
RA  Ekker S. C., Young K. E., von Kessler D. P., Beachy P. A.
RT  Optimal DNA sequence recognition by the Ultrabithorax homeodomain 
RT  of Drosophila
RL  EMBO J. 10:1179-1186 (1991).
XX
//
AC  M00019
XX
ID  I$DFD_01
XX
NA  Dfd
XX
DT  EWI (created); 30.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01  0.99  1.03  0.99  0.99
02  1.01  0.97  1.01  1.01
03  1.13  0.93  1.05  0.89
04  0.98  0.90  1.23  0.89
05  0.80  1.09  1.12  0.99
06  1.42  0.61  1.40  0.57
07  4.00  0.00  0.00  0.00
08  0.00  0.00  0.00  4.00
09  0.00  0.00  0.00  4.00
10  4.00  0.00  0.00  0.00
11  1.25  1.79  0.45  0.51
12  0.33  1.32  0.26  2.09
13  0.97  0.83  1.02  1.17
14  0.97  0.82  1.37  0.85
15  1.01  0.99  1.03  0.97
16  0.99  1.01  0.98  1.03
XX
BF  T00193; Dfd                          ; fruit fly
XX
BA  57 selected sequences, normalized to a sum of 4 for all 4 bases 
BA  in each position; central ATTA was fixed
XX
RN  [1]
RA  Ekker St. C., von Kessler D. P., Beachy Ph. A.
RT  Differential DNA sequence recognition is a determinant of specificity 
RT  in homeotic gene action
RL  EMBO J. 11:4059-4072 (1992).
XX
//
AC  M00020
XX
ID  I$FTZ_01
XX
NA  Ftz
XX
DT  EWI (created); 30.11.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     5     2     2     0
02     4     2     2     1
03     4     0     2     3
04     2     2     5     0
05     0     6     0     3
06     7     0     1     1
07     9     0     0     0
08     0     0     0     9
09     0     0     0     9
10     9     0     0     0
11     9     0     0     0
12     0     0     9     0
XX
BF  T00295; Ftz                          ; fruit fly
XX
BA  9 selected sequences bound by the Ftz homeo domain, ATTAAG was fixed !
XX
CC  only sequences with KD < 4xKD(consensus) were taken
XX
RN  [1]
RA  Florence B., Handrow R., Laughon A.
RT  DNA-binding specificity of th fushi tarazu homeodomain
RL  Mol. Cell. Biol. 11:3613-3623 (1991).
XX
//
AC  M00021
XX
ID  I$KR_01
XX
NA  Kr (Krueppel)
XX
DT  EWI (created); 03.12.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     5     0     1     0
02     3     2     0     1
03     1     3     0     2
04     0     0     6     0
05     0     0     6     0
06     1     0     5     0
07     1     0     0     5
08     0     0     0     6
09     4     0     1     1
10     3     1     0     2
XX
BF  T00456; Kr                           ; fruit fly
XX
BA  6 Krueppel binding sites within the eve promoter
XX
CC  compiled sequences
XX
RN  [1]
RA  Stanojevic D., Hoey T., Levine M.
RT  Sequence-specific DNA-binding activities of the gap proteins 
RT  encoded by hunchback and Krueppel in Drosophila
RL  Nature 341:331-335 (1989).
XX
//
AC  M00022
XX
ID  I$HB_01
XX
NA  Hb (Hunchback)
XX
DT  EWI (created); 03.12.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     5     8     2
02     6     8     2     0
03     9     3     4     0
04     4     3     1     8
05    13     1     0     2
06    16     0     0     0
07    16     0     0     0
08    14     0     2     0
09    15     1     0     0
10     9     2     2     3
XX
BF  T00395; Hb                           ; fruit fly
XX
BA  16 Hb binding sites within the eve promoter
XX
CC  compiled sequences
XX
RN  [1]
RA  Stanojevic D., Hoey T., Levine M.
RT  Sequence-specific DNA-binding activities of the gap proteins 
RT  encoded by hunchback and Krueppel in Drosophila
RL  Nature 341:331-335 (1989).
XX
//
AC  M00023
XX
ID  V$HOX13_01
XX
NA  Hox-1.3
XX
DT  EWI (created); 03.12.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     2     1     6
02     0     2     7     1
03     1     7     1     1
04     3     4     1     2
05     4     3     0     3
06     4     2     1     3
07     1     5     2     2
08     3     2     0     5
09     1     4     1     4
10     1     9     0     0
11     1     6     1     2
12     1     5     0     4
13     2     7     0     1
14    10     0     0     0
15     0     0     0    10
16     0     0     0    10
17    10     0     0     0
18     0     2     5     3
19     0     2     0     8
20     2     2     5     1
21     2     3     3     2
22     3     0     3     4
23     2     5     1     2
24     3     2     4     1
25     4     4     1     1
26     2     4     3     1
27     3     3     0     4
28     1     5     0     4
29     1     7     1     1
30     4     2     2     2
XX
BF  T00377; Hox-1.3                      ; mouse
XX
BA  10 Hox-1.3 in vitro binding sites of 10 different genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Odenwald W. F., Garbern J., Arnheiter H., Tournier-Lasserve 
RA  E., Lazzarini R. A.
RT  The HOX-1.3 homeo box protein is a sequence-specific DNA-binding 
RT  phosphoprotein
RL  Genes Dev. 3:158-172 (1989).
XX
//
AC  M00024
XX
ID  V$E2F_01
XX
NA  E2F
XX
DT  EWI (created); 04.12.92.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     0     0     4
02     2     1     0     2
03     1     2     2     0
04     0     1     4     0
05     0     5     0     0
06     0     0     5     0
07     0     4     1     0
08     0     0     5     0
09     5     0     0     0
10     5     0     0     0
11     5     0     0     0
12     5     0     0     0
13     1     2     0     2
14     0     0     2     3
15     2     0     3     0
XX
BF  T00219; E2F                          ; mouse
BF  T00220; E2F                          ; monkey
BF  T00221; E2F                          ; human
XX
BA  5 E2F binding sites in 3 E1A-inducible promoters
XX
CC  compiled sequences
XX
RN  [1]
RA  Thalmeier K., Synovzik H., Mertz R., Winnacker E.-L., Lipp M.
RT  Nuclear factor E2F mediates basic transcription and trans-activation 
RT  by E1a of the human MYC promoter
RL  Genes Dev. 3:527-536 (1989).
XX
//
AC  M00025
XX
ID  V$ELK1_02
XX
NA  Elk-1
XX
DT  EWI (created); 31.01.94.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     3    12     5    11
02     5    11    10     5
03    10     9     7     5
04    12     3    11     5
05     6    20     3     2
06     5    24     1     1
07     0     0    31     0
08     0     0    31     0
09    31     0     0     0
10    27     0     0     4
11    11     3    17     0
12     2     8     5    16
13     8    10     6     7
14     8    11     6     6
15     0     0     0     0
XX
BF  T00250; Elk-1                        ; human
XX
BA  31 selected sites
XX
CC  single binding sites in variable distances to SRF-binding sites
XX
RN  [1]
RA  Treisman R., Marais R., Wynne J.
RT  Spatial flexibility in ternary complexes between SRF and its 
RT  accessory proteins
RL  EMBO J. 11:4631-4640 (1992).
XX
//
AC  M00026
XX
ID  V$RSRFC4_01
XX
NA  RSRFC4
XX
DT  EWI (created); 31.01.94.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    17     4    12     5
02    10     2    13    13
03     3     3    12    20
04     0    35     0     3
05     0     0     0    38
06    38     0     0     0
07     1     0     0    37
08     5     0     0    33
09     8     0     0    30
10    23     0     0    15
11     0     0     0    38
12    38     0     0     0
13     4     1    33     0
14    14    20     0     4
15    12     6     2    18
16     5     9     5    19
XX
BF  T01009; RSRFC4                       ; human
XX
BA  38 selected binding sites
XX
RN  [1]
RA  Pollock R., Treisman R.
RT  Human SRF-related proteins: DNA-binding properties and potential 
RT  regulatory targets
RL  Genes Dev. 5:2327-2341 (1991).
XX
//
AC  M00027
XX
ID  F$ABAA_01
XX
NA  AbaA
XX
DT  EWI (created); 23.07.94.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3    10     2     7
02     5     9     6     2
03     2     6     5     9
04     0     6     6    10
05     0    10     2    10
06     1     8     1    12
07     7     2     7     6
08     0    22     0     0
09    22     0     0     0
10     0     0     0    22
11     0     0     0    22
12     0    22     0     0
13     0    15     0     7
14     7     5     2     8
15     5     4     7     6
16     4     7     3     8
17     3     6     8     5
18     6     9     4     3
19     1     7     5     9
XX
BF  T01085; abaA                         ; Aspergillus nidulans
XX
BA  22 elements from 5 developmentally regulated genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Adrianopoulos A., Timberlake W. E.
RT  The Aspergillus nidulans abaA gene encodes a transcriptional 
RT  activator that acts as a genetic switch to control development
RL  Mol. Cell. Biol. 14:2503-2515 (1994).
XX
//
AC  M00028
XX
ID  I$HSF_01
XX
NA  HSF (Drosophila)
XX
DT  EWI (created); 18.10.94.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    31    14     4     1
02     0     0    50     0
03    48     2     0     0
04    43     1     5     1
05    23     1    14    12
XX
BF  T00386; HSTF                         ; fruit fly
XX
BA  50 functional genomic HSEs
XX
CC  not included are sequences with more than 2 mismatches at positions 
CC  2 to 4; the matrix only describes the properties of the basic 
CC  5-bp unit of which three have to be present to constitute a minimal HSE
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00029
XX
ID  F$HSF_01
XX
NA  HSF (yeast)
XX
DT  EWI (created); 18.10.94.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    28     6    12     4
02     0     0    48     2
03    46     0     2     2
04    46     0     2     2
05    12    19     8    11
XX
BF  T00385; HSTF                         ; yeast
XX
BA  50 functional genomic HSEs
XX
CC  the matrix only describes the properties of the basic 5-bp unit 
CC  of which three have to be present to constitute a minimal HSE; 
CC  not included are sequences with more than 2 mismatches at positions 2 to 4
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00030
XX
ID  F$MATA1_01
XX
NA  MATa1
XX
DT  EWI (created); 18.10.94.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     1     1    12
02     0     0    14     0
03    14     0     0     0
04     0     0     0    14
05     0     0    14     0
06     1     2     0    11
07    10     0     3     1
08     6     2     4     2
09     5     4     1     4
10     2     1     1    10
XX
BF  T00486; MATalpha1                    ; yeast
XX
BA  a1 half-sites of 14 hsg operators of 4 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Goutte C., Johnson A. D.
RT  Recognition of a DNA operator by a dimer composed of two different 
RT  homeodomain proteins
RL  EMBO J. 13:1434-1442 (1994).
XX
//
AC  M00031
XX
ID  F$MATALPHA2_01
XX
NA  MATalpha2
XX
DT  EWI (created); 18.10.94.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     2     2     3     7
02     2    10     1     1
03     8     1     4     1
04     1     1     0    12
05     0     0    13     1
06     0     1     0    13
07     5     3     2     4
08     7     2     2     3
09     7     1     0     6
10     6     3     1     4
XX
BF  T00487; MATalpha2                    ; yeast
XX
BA  alpha2 half-sites of 14 hsg operators of 4 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Goutte C., Johnson A. D.
RT  Recognition of a DNA operator by a dimer composed of two different 
RT  homeodomain proteins
RL  EMBO J. 13:1434-1442 (1994).
XX
//
AC  M00032
XX
ID  V$CETS1P54_01
XX
NA  c-Ets-1(p54)
XX
DT  EWI (created); 10.12.94.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     7     2     3     3
02     1    14     0     0
03     5     9     0     1
04     0     0    15     0
05     0     0    15     0
06    15     0     0     0
07     8     2     0     5
08     4     1    10     0
09     1     6     0     8
10     5     4     4     2
XX
BF  T00111; c-Ets-1                      ; mouse
BF  T00114; c-Ets-1 54                   ; chick
XX
BA  15 selected binding sites for bacterially expressed murine factor
XX
CC  Dissociation constants range between 0.038 nM and >3 nM
XX
RN  [1]
RA  Nye J. A., Petersen J. M., Gunther C. V., Jonsen M. D., Graves B. J.
RT  Interaction of murine Ets-1 with GGA-binding sites establishes 
RT  the Ets domain as a new DNA-binding motif
RL  Genes Dev. 6:975-990 (1992).
XX
//
AC  M00033
XX
ID  V$P300_01
XX
NA  p300
XX
DT  ewi (created); 10.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     1     3     3
02     3     5     2     2
03     5     3     4     1
04     4     1     8     2
05     2     0    14     0
06     2     1    10     3
07    13     1     1     1
08     0     0    14     0
09     1     0     0    15
10     3     1     8     4
11     5     4     3     4
12     3     3     7     3
13     4     4     2     5
14     1     5     6     2
XX
BF  T01427; p300                         ; human
XX
BA  16 selected p300 binding oligonucleotides
XX
RN  [1]
RA  Rikitake Y., Moran E.
RT  DNA-binding properties of the E1A-associated 300-Kilodalton protein
RL  Mol. Cell. Biol. 12:2826-2836 (1992).
XX
//
AC  M00034
XX
ID  V$P53_01
XX
NA  p53
XX
DT  ewi (created); 10.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     4     0    13     0
02     5     0    12     0
03    15     0     2     0
04     0    17     0     0
05    17     0     0     0
06     0     0     0    17
07     0     0    17     0
08     0    13     0     4
09     0    17     0     0
10     0    17     0     0
11     0     0    17     0
12     0     0    17     0
13     2     0    15     0
14     0    17     0     0
15    17     0     0     0
16     0     0     0    17
17     0     0    17     0
18     0     2     0    15
19     0    13     0     4
20     0     7     2     7
XX
BF  T00671; p53                          ; human
XX
BA  17 selected binding sequences
XX
CC  six CASTing cycles with p53 (overexpressed in murine C2C12 cells) 
CC  using random 35-mers
XX
RN  [1]
RA  Funk W. D., Pak D. T., Karas R. H., Wright W. E., Shay J. W.
RT  A transcriptionally active DNA-binding site for human p53 protein 
RT  complexes
RL  Mol. Cell. Biol. 12:2866-2871 (1992).
XX
//
AC  M00035
XX
ID  V$VMAF_01
XX
NA  v-Maf
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    17     3     8    11
02    12     7     8    12
03    19     7     6     7
04     5     6     1    27
05     2     0    36     1
06     9    29     0     1
07     2     2     0    35
08     1     2    33     3
09    37     0     2     0
10     0    34     0     5
11     5     5     6    23
12     8    21     7     3
13    23     1     7     8
14     1     0    36     2
15     4    29     4     2
16    24     5     7     3
17     7    18     6     8
18    12    11     9     7
19    12    10     9     8
XX
BF  T01430; v-Maf                        ; AS42
XX
BA  39 selected v-Maf binding sites of TRE-type
XX
CC  PCR amplification of random eikosamers with fixed flanks binding 
CC  to recombinant bZIP domain of v-Maf fused to maltose-binding 
CC  protein and expressed in E. coli
XX
RN  [1]
RA  Kataoka K., Noda M., Nishizawa M.
RT  Maf  nuclear oncoprotein recognizes sequences related to an 
RT  AP-1 site and forms heterodimers with both Fos and Jun
RL  Mol. Cell. Biol. 14:700-712 (1994).
XX
//
AC  M00036
XX
ID  V$VJUN_01
XX
NA  v-Jun
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     6     8     5     5
02     2    11     3     8
03     6     0    15     3
04    20     0     4     0
05     0     0     0    24
06     0     0    24     0
07    24     0     0     0
08     0    24     0     0
09     0     0    24     0
10     0     0     0    24
11     0    24     0     0
12    24     0     0     0
13     0     2     1    21
14     5     8     4     7
15     3    13     4     4
16     5    10     0     9
XX
BF  T00893; v-Jun                        ; ASV
XX
BA  24 selected binding sites
XX
CC  PCR amplification of random eikosamers with fixed flanks binding 
CC  to recombinant bZIP domain of v-Jun fused to maltose-binding 
CC  protein and expressed in E. coli
XX
XX
//
AC  M00037
XX
ID  V$NFE2_01
XX
NA  NF-E2
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     2     2     0     5
02     2     0     7     0
03     1     8     0     0
04     0     0     0     9
05     0     0     9     0
06     9     0     0     0
07     0     3     6     0
08     0     0     1     8
09     0     8     0     1
10     8     1     0     0
11     1     4     0     4
XX
BF  T00557; NF-E2                        ; mouse
BF  T00558; NF-E2                        ; human
BF  T01141; NF-E2                        ; chick
BF  T01440; NF-E2 p45                    ; human
BF  T01441; NF-E2 p45                    ; mouse
XX
BA  9 synthetic binding sites
XX
CC  compiled oligonucleotides which compete in gel shift experiments 
CC  for binding to purified NF-E2 (from mouse MEL cells)
XX
RN  [1]
RA  Andrews N. C., Erdjument-Bromage H., Davidson M. B., Tempst 
RA  P., Orkin S. H.
RT  Erythroid transcription factor NF-E2 is a haematopoietic-specific 
RT  basic-leucine zipper protein
RL  Nature 362:722-728 (1993).
XX
//
AC  M00038
XX
ID  F$GCN4
XX
NA  GCN4
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     4     6     2     2
02     2     7     5     1
03     7     6     2     3
04     2     7     9     2
05     3     6     6     8
06     5     4    10     6
07     5    11     7     4
08     4    12     9     5
09     6     9    11    11
10    19     6    15     2
11     0     0     0    43
12     0     0    43     0
13    43     0     0     0
14     0    43     0     0
15     2     0     0    41
16     1    42     0     0
17    43     0     0     0
18     1    11     5    26
19    12    16     2     8
20     4    14    13     3
21    12    10     4     8
22     6     9    11     7
23     7    10     4    10
24     4     8    11     5
25     5    10     6     6
26     8     7     3     7
27     6     7     4     6
XX
BF  T00321; GCN4                         ; yeast
XX
BA  43 selected GCN4-binding sites
XX
CC  oligonucleotides were affinity-selected on a GCN4-column containing 
CC  bacterially expressed factor
XX
RN  [1]
RA  Oliphant A. R., Brandl C. J., Struhl K.
RT  Defining the sequence specificity of DNA-binding proteins by 
RT  selecting binding sites from random-sequence oligonucleotides: 
RT  analysis of yeast GCN4 protein
RL  Mol. Cell. Biol. 9:2944-2949 (1989).
XX
//
AC  M00039
XX
ID  V$CREB_01
XX
NA  CREB
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 12.05.95.
XX
PO     A     C     G     T
01     0     0     0    29
02     0     0    28     1
03    29     0     0     0
04     0    29     0     0
05     0     1    28     0
06     0     1     1    27
07    12    16     1     0
08    17     1     4     7
XX
BF  T00163; CREB                         ; human
BF  T00164; CREB                         ; rat
BF  T00165; deltaCREB                    ; rat
BF  T00166; deltaCREB                    ; human
BF  T00989; CREB                         ; mouse
BF  T01311; deltaCREB                    ; mouse
XX
BA  29 selected binding oligonucleotides
XX
CC  sequences were selected by CASTing technique using deltaCREB 
CC   translated in vitro in reticulocyte lysate and binding as homodimer
XX
RN  [1]
RA  Benbrook D. M., Jones N. C.
RT  Different binding specificities and transcactivation of variant 
RT  CRE's by CREB complexes
RL  Nucleic Acids Res. 22:1463-1469 (1994).
XX
//
AC  M00040
XX
ID  V$CREBP1_01
XX
NA  CRE-BP1
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0    47
02     0     0     8    39
03    47     0     0     0
04     0    47     0     0
05     4     0    43     0
06     0     0     0    47
07    39     7     0     1
08    45     2     0     0
XX
BF  T00167; CRE-BP1                      ; human
XX
BA  47 selected binding sequences
XX
CC  sequences were selected by CASTing technique using CRE-BP1
XX
RN  [1]
RA  Benbrook D. M., Jones N. C.
RT  Different binding specificities and transcactivation of variant 
RT  CRE's by CREB complexes
RL  Nucleic Acids Res. 22:1463-1469 (1994).
XX
//
AC  M00041
XX
ID  V$CREBP1CJUN_01
XX
NA  CRE-BP1/c-Jun
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     1     0    42
02     2     0    41     0
03    43     0     0     0
04     0    43     0     0
05     2     1    40     0
06     0     0     0    43
07     0    20     3    20
08    40     1     0     2
XX
BF  T00131; c-Jun                        ; mouse
BF  T00132; c-Jun                        ; rat
BF  T00133; c-Jun                        ; human
BF  T00134; c-Jun                        ; chick
BF  T00167; CRE-BP1                      ; human
XX
BA  43 selected binding sequences
XX
CC  sequences were selected by CASTing technique using co-translated 
CC  CRE-BP1 and c-Jun binding to DNA as heterodimers
XX
RN  [1]
RA  Benbrook D. M., Jones N. C.
RT  Different binding specificities and transcactivation of variant 
RT  CRE's by CREB complexes
RL  Nucleic Acids Res. 22:1463-1469 (1994).
XX
//
AC  M00042
XX
ID  V$SOX5_01
XX
NA  Sox-5
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     4     6     3     9
02     7     4     3     8
03    21     0     1     1
04    22     0     1     0
05     0    22     0     1
06    23     0     0     0
07    22     1     0     0
08     0     0     0    23
09    10     3     6     4
10     5     7     6     5
XX
BF  T01429; Sox-5                        ; mouse
XX
BA  23 selected binding sequences
XX
CC  oligonucleotides binding to bacterially expressed GST-Sox-5 
CC  fusion protein were selected by 5 selection/amplification rounds
XX
RN  [1]
RA  Denny P., Swift S., Connor F., Ashworth A.
RT  An SRY-related gene expressed during spermatogenesis in the 
RT  mouse encodes a sequence-specific DNA-binding protein
RL  EMBO J. 11:3705-3712 (1992).
XX
//
AC  M00043
XX
ID  I$DL_01
XX
NA  dl
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 18.05.95.
XX
PO     A     C     G     T
01     0     2    18     2
02     0     0    22     0
03     0     0    22     0
04     4     2     0    16
05     4     1     0    17
06     1     0     0    12
07     0     0     0    22
08     0     0     0    22
09     1    21     0     0
10     0    22     0     0
11     5     8     7     2
XX
BF  T00196; dl                           ; fruit fly
XX
BA  22 selected binding sequences
XX
CC  SAAB analysis of oligonucleotides binding to bacterially expressed 
CC  dorsal (dl) protein; alignment produces many gaps in position 6
XX
RN  [1]
RA  Pan D., Courey A. J.
RT  The same dorsal binding site mediates both activation and repression 
RT  in a context-dependent manner
RL  EMBO J. 11:1837-1842 (1992).
XX
//
AC  M00044
XX
ID  I$SN_02
XX
NA  Sn
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     5     2     1     1
02     1     4     3     1
03     2     5     1     1
04     8     0     1     0
05     1     5     2     1
06     0     5     2     2
07     0     0     0     9
08     0     0     9     0
09     2     2     0     5
10     0     0     0     9
11     2     1     2     4
12     3     2     3     1
13     1     5     2     1
14     6     1     0     2
XX
BF  T00751; Sn                           ; fruit fly
XX
BA  9 binding sites from Drosophila sim gene
XX
CC  bacterially expressed Snail (Sna, Sn) protein
XX
RN  [1]
RA  Kasai Y., Nambu J. R., Lieberman P. M., Crews S. T.
RT  Dorsal-ventral patterning in Drosophila: DNA binding of snail 
RT  protein to the single-minded gene
RL  Proc. Natl. Acad. Sci. USA 89:3414-3418 (1992).
XX
//
AC  M00045
XX
ID  V$E4BP4_01
XX
NA  E4BP4
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     6     9     3     5
02     9     3    11     0
03     1     0     0    22
04     0     0     2    21
05    23     0     0     0
06     0     8     0    15
07     1     0    22     0
08     0     0     0    23
09    23     0     0     0
10    23     0     0     0
11     0    11     4     8
12     7     4     8     4
XX
BF  T01428; E4BP4                        ; human
XX
BA  23 selected binding sequences
XX
CC  high-affiity binding sites for in vitro translated E4BP4
XX
RN  [1]
RA  Cowell I. G., Skinner A., Hurst H. C.
RT  Transcriptional repression by a novel member of the bZIP family 
RT  of transcription factors
RL  Mol. Cell. Biol. 12:3070-3077 (1992).
XX
//
AC  M00046
XX
ID  F$GCR1_01
XX
NA  GCR1
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     2     0     4     0
02     1     0     4     1
03     0     6     0     0
04     1     0     0     5
05     0     0     0     6
06     0     6     0     0
07     0     6     0     0
08     3     0     0     3
09     1     4     1     0
XX
BF  T00322; GCR1                         ; yeast
XX
BA  6 genomic binding sites from 5 genes
XX
CC  proven by gel shift assays
XX
RN  [1]
RA  Huie M. A., Scott E. W., Drazinic C. M., Lopez M. C., Hornstra 
RA  I. K., Yang T. P., Baker H. V.
RT  Characterization of the DNA-binding activity of GCR1: In vivo 
RT  evidence for two GCR1-binding sites in the upstream activating 
RT  sequence of TPI of Saccharomyces cerevisiae
RL  Mol. Cell. Biol. 12:2690-2700 (1992).
XX
//
AC  M00047
XX
ID  F$QA1F_01
XX
NA  qa-1F
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     7     0     3
02     2     6     1     4
03     0     1    12     0
04     0     0    13     0
05     4     3     4     2
06     1     0     1    11
07    10     1     2     0
08    12     0     0     1
09     5     0     4     4
10     1     5     2     5
11     5     2     5     1
12     2     6     0     5
13     1     3     0     9
14     1     3     0     9
15    11     1     0     1
16     3     1     0     9
17     1    10     1     1
18     2    10     1     0
19     1     3     5     4
20     0     5     5     3
XX
BF  T00709; qa-1F                        ; Neurospora crassa
XX
BA  13 binding sites from 5 genes
XX
CC  identified by footprinting
XX
RN  [1]
RA  Baum J. A., Geever R., Giles N. H.
RT  Expression of qa-1F activator protein: identification of upstream 
RT  binding sites in the qa gene cluster and localization of the 
RT  DNA-binding domain
RL  Mol. Cell. Biol. 7:1256-1266 (1987).
XX
//
AC  M00048
XX
ID  F$ADR1_01
XX
NA  ADR1
XX
DT  ewi (created); 12.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     5     2     6
02     0     0    16     0
03     0     0    16     0
04     6     0    10     0
05     0     0    15     0
06     0     1     3     4
XX
BF  T00011; ADR1                         ; yeast
XX
BA  16 selected binding sequences
XX
CC  random octameric oligonucleotides with fixed flanks bound to 
CC  bacterially synthesized ADR1
XX
RN  [1]
RA  Cheng C., Kacherovsky N., Dombek K. M., Camier S., Thukral S. 
RA  K., Rhim E., Young E. T.
RT  Identification of potential target genes for Adr1p through characterization 
RT  of essential nucleotides in UAS1
RL  Mol. Cell. Biol. 14:3842-3852 (1994).
XX
//
AC  M00049
XX
ID  F$GAL4_01
XX
NA  GAL4
XX
DT  ewi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     5     3     2
02     5     2     1     3
03     3     2     1     5
04     1    10     0     0
05     0     0    10     1
06     0     1    10     0
07     4     3     3     1
08     1     3     4     3
09     2     4     4     1
10     7     0     2     2
11     1     8     2     0
12     4     1     0     6
13     1     3     5     2
14     0     2     1     8
15     1     6     2     2
16     1     5     4     1
17     2     1     1     7
18     0    10     1     0
19     0    11     0     0
20     0     0    11     0
21     8     0     0     3
22     7     0     4     0
23     2     6     3     0
XX
BF  T00302; GAL4                         ; yeast
XX
BA  11 genomic binding sites from 6 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Bram R. J., Lue N. F., Kornberg R. D.
RT  A GAL family of upstream activating sequences in yeast: roles 
RT  in both induction and repression of transcription
RL  EMBO J. 5:603-608 (1986).
XX
//
AC  M00050
XX
ID  V$E2F_02
XX
NA  E2F
XX
DT  ewi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     0    12
02     0     0     0    12
03     0     0     0    12
04     0     6     6     0
05     0     2    10     0
06     0    12     0     0
07     0     0    12     0
08     0    11     1     0
XX
BA  12 binding sites from 7 cellular and 1 viral genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Nevins R.
RT  E2F: A link between the Rb tumor suppressor protein and viral 
RT  oncoproteins
RL  Science 258:424-429 (1992).
XX
//
AC  M00051
XX
ID  V$NFKAPPAB50_01
XX
NA  NF-kappaB (p50)
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0    18     0
02     0     0    18     0
03     0     0    18     0
04     2     0    16     0
05    16     1     0     1
06     0     0     3    15
07     0     7     1    10
08     0    16     0     2
09     0    18     0     0
10     0    17     1     0
XX
BF  T00593; NF-kappaB1                   ; human
XX
BA  18 selected binding sequences
XX
CC  oligonucleotides binding to bacterially expressed NF-kappaB 
CC  (p50) were selected (gel shift) and amplified (PCR) in 3 cycles
XX
RN  [1]
RA  Kunsch C., Ruben S. M., Rosen C. A.
RT  Selection of optimal kappaB/Rel DNA-binding motifs: interaction 
RT  of both subunits of NF-kappaB with DNA is required for transcriptional 
RT  activation
RL  Mol. Cell. Biol. 12:4412-4421 (1992).
XX
//
AC  M00052
XX
ID  V$NFKAPPAB65_01
XX
NA  NF-kappaB (p65)
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     4    10     4
02     0     0    18     0
03     0     0    18     0
04    11     0     7     0
05    10     3     3     2
06     1     0     0    17
07     0     0     0    18
08     0     3     0    15
09     0    18     0     0
10     0    18     0     0
XX
BF  T00594; RelA                         ; human
BF  T00595; RelA                         ; mouse
XX
BA  18 selected binding sequences
XX
CC  oligonucleotides binding to bacterially expressed NF-kappaB 
CC  (p65) were selected (gel shift) and amplified (PCR) in 3 cycles
XX
RN  [1]
RA  Kunsch C., Ruben S. M., Rosen C. A.
RT  Selection of optimal kappaB/Rel DNA-binding motifs: interaction 
RT  of both subunits of NF-kappaB with DNA is required for transcriptional 
RT  activation
RL  Mol. Cell. Biol. 12:4412-4421 (1992).
XX
//
AC  M00053
XX
ID  V$CREL_01
XX
NA  c-Rel
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     5     8     4
02     0     0    16     1
03     1     0    15     1
04     5     1     9     2
05     6     5     3     3
06     5     1     1    10
07     1     0     0    16
08     2     0     0    15
09     0    15     0     2
10     1    16     0     0
XX
BF  T00168; c-Rel                        ; human
BF  T00169; c-Rel                        ; mouse
BF  T01154; c-Rel                        ; chick
XX
BA  17 selected binding sequences
XX
CC  oligonucleotides binding to bacterially expressed c-Rel were 
CC  selected (gel shift) and amplified (PCR) in 3 cycles
XX
RN  [1]
RA  Kunsch C., Ruben S. M., Rosen C. A.
RT  Selection of optimal kappaB/Rel DNA-binding motifs: interaction 
RT  of both subunits of NF-kappaB with DNA is required for transcriptional 
RT  activation
RL  Mol. Cell. Biol. 12:4412-4421 (1992).
XX
//
AC  M00054
XX
ID  V$NFKAPPAB_01
XX
NA  NF-kappaB
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0    33     0
02     0     0    33     0
03     0     0    33     0
04    23     0    10     0
05    15    10     3     5
06     9     2     1    21
07     0     5     3    25
08     1    15     0    17
09     2    31     0     0
10     0    33     0     0
XX
BF  T00587; NF-kappaB                    ; rat
BF  T00588; NF-kappaB                    ; mouse
BF  T00590; NF-kappaB                    ; human
XX
BA  33 binding sites from 18 genes (15 cellular genes and 3 viral genomes)
XX
CC  compiled sequences
XX
RN  [1]
RA  Zabel U., Schreck R., Baeuerle P. A.
RT  DNA binding of purified transcription factor NF-kappaB
RL  J. Biol. Chem. 266:252-260 (1991).
XX
//
AC  M00055
XX
ID  V$NMYC_01
XX
NA  N-Myc
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     7    11     6    16
02    10    15     6     9
03     9    20     6     5
04     0    39     1     0
05    32     0     4     4
06     0    39     0     1
07     2     0    38     0
08     0     3     0    37
09     0     0    40     0
10     6    11     8    15
11    11    16     5     8
12    11    11    11     7
XX
BF  T01445; N-Myc                        ; mouse
XX
BA  40 selected binding sequences
XX
CC  oligonucleotides bound to bacterially expressed GST-N-Myc fusion protein
XX
RN  [1]
RA  Alex R., Szeri O., Meyer S., Dildrop R.
RT  Determination of the DNA sequence recognized by the bHLH-zip 
RT  domain of the N-Myc protein
RL  Nucleic Acids Res. 20:2257-2263 (1992).
XX
//
AC  M00056
XX
ID  V$NF1_01
XX
NA  NF-1
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     5     0     2
02     5     0     3     0
03     0     4     3     1
04     1     6     0     1
05     1     1     1     5
06     0     2     5     1
07     0     1     0     7
08     0     2     2     4
09     0     3     2     3
10     3     1     1     3
11     3     1     2     2
12     2     0     1     5
13     0     2     0     6
14     0     0     1     7
15     0     0     7     1
16     0     0     8     0
17     1     5     0     1
18     5     0     2     1
19     1     5     1     1
20     0     2     4     2
21     0     3     4     1
22     3     1     1     3
23     0     1     7     0
24     0     7     0     1
25     1     7     0     0
26     6     0     1     1
27     4     0     3     1
28     1     4     1     2
29     3     2     0     3
XX
BF  T00533; NF-1                         ; cat
BF  T00534; NF-1                         ; monkey
BF  T00535; NF-1                         ; rat
BF  T00536; NF-1                         ; clawed frog
BF  T00537; NF-1                         ; mouse
BF  T00538; NF-1                         ; domestic pig
BF  T00539; NF-1                         ; human
BF  T00544; NF-1A1                       ; chick
BF  T00551; NF-1B1                       ; chick
BF  T00552; NF-1B2                       ; chick
BF  T00554; NF-1C2                       ; chick
BF  T00599; NF-1/L                       ; rat
BF  T00604; NF-1/Red1                    ; hamster
BF  T00610; NF-1/X                       ; hamster
BF  T01036; NF-1                         ; hamster
BF  T01298; NF-1                         ; sheep
XX
BA  8 selected binding sequences
XX
CC  6 CASTing cycles for oligonucleotides binding to a member of the NF-1 family
XX
RN  [1]
RA  Funk W. D., Wright W. E.
RT  Cyclic amplification and selection of targets for multicomponent 
RT  complexes: Myogenin interacts with factors recognizing binding 
RT  sites for basic helix--loop--helix, nuclear factor 1, myocyte-specific 
RT  enhancer-binding factor 2 , and COMP1 factor
RL  Proc. Natl. Acad. Sci. USA 89:9484-9488 (1992).
XX
//
AC  M00057
XX
ID  V$COMP1_01
XX
NA  COMP1
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     1     2     3
02     2     2     3     0
03     1     1     1     4
04     1     1     2     3
05     3     0     0     4
06     1     0     2     4
07     0     2     5     0
08     6     0     0     1
09     1     0     0     6
10     1     0     0     6
11     1     0     6     0
12     4     1     2     0
13     0     6     1     0
14     3     1     2     1
15     4     0     2     1
16     0     4     2     1
17     4     0     2     1
18     5     1     1     0
19     3     2     2     0
20     4     2     0     0
21     2     1     3     0
22     2     1     3     0
23     0     2     2     2
24     1     2     2     1
XX
BF  T01446; COMP1                        ; mouse
XX
BA  7 selected binding sequences
XX
CC  6 CASTing cycles for oligonucleotides binding to a factor that 
CC  cooperates with myogenic proteins
XX
RN  [1]
RA  Funk W. D., Wright W. E.
RT  Cyclic amplification and selection of targets for multicomponent 
RT  complexes: Myogenin interacts with factors recognizing binding 
RT  sites for basic helix--loop--helix, nuclear factor 1, myocyte-specific 
RT  enhancer-binding factor 2 , and COMP1 factor
RL  Proc. Natl. Acad. Sci. USA 89:9484-9488 (1992).
XX
//
AC  M00058
XX
ID  V$HEN1_02
XX
NA  HEN1
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01    33    16    27    24
02    29    12    31    27
03    19     7    52    22
04     5     0    78    16
05     5     2    91     2
06    21    29    30    20
07    25    72     4     0
08     5    14    64    17
09     0   100     0     0
10   100     0     0     0
11     3     5    91     0
12     2    88     9     2
13     0     0     0   100
14     0     0   100     0
15     7    67    12    14
16     5     3    67    25
17    11    30    23    36
18     5    80     5     9
19    16    68     5    11
20    13    57     9    20
21    22    41    10    26
22    27    16    24    33
XX
BF  T01447; HEN1                         ; rat
XX
BA  54 selected binding sequences
XX
CC  oligonucleotides bound to in vitro-translated HEN1 and isolated 
CC  by CASTing; figures are percentages
XX
RN  [1]
RA  Brown L., Baer R.
RT  HEN1 encodes a 20-kilodalton phosphoprotein that binds an extended 
RT  E-box motif as a homodimer
RL  Mol. Cell. Biol. 14:12 (1994).
XX
//
AC  M00059
XX
ID  V$YY1_01
XX
NA  YY1
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     3     4     6     5
02     7     5     5     1
03     6     3     3     6
04     3     7     5     3
05     6     2     4     6
06     1    13     1     3
07     0    18     0     0
08    17     1     0     0
09     0     0     2    16
10     5     3     3     7
11     1     2     2    13
12     5     2     1     9
13     3     4     5     6
14     4     4     6     4
15     6     4     6     2
16     9     2     2     5
17     3     6     5     4
XX
BF  T00278; delta factor                 ; mouse
BF  T00915; YY1                          ; human
XX
BA  18 repressing binding sites from 7 cellular genes and 6 viral genomes
XX
CC  compiled sequences
XX
RN  [1]
RA  Shrivastava A., Calame K.
RT  An analysis of genes regulated by the multi-functional transcriptional 
RT  regulator Yin Yang-1
RL  Nucleic Acids Res. 22:5151-5155 (1994).
XX
//
AC  M00060
XX
ID  I$SN_01
XX
NA  Sn
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     7     6     7     2
02     9     5     4     7
03    13     2    13     1
04    27     0     8     3
05     0    39     1     0
06    39     0     0     1
07     3     0    37     0
08     2     0    38     0
09     0     0     0    40
10     0     0    37     3
11     3    19     3    12
12    18     8     2     4
13     7    11     7     5
XX
BA  40 selected binding sequences
XX
CC  selection from random 17-mers by binding to bacterially expressed 
CC  beta-Gal-Snail fusion protein
XX
RN  [1]
RA  Mauhin V., Lutz Y., Dennefeld C., Alberga A.
RT  Definition of the DNA-binding site repertoire for the Drosophila 
RT  transcription factor SNAIL
RL  Nucleic Acids Res. 21:3951-3957 (1993).
XX
//
AC  M00061
XX
ID  F$MIG1_01
XX
NA  MIG1
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     1     6     6
02     8     2     1     3
03     6     3     1     4
04     7     0     2     5
05     7     0     0     7
06     9     0     0     5
07     9     0     0     5
08    10     0     2     2
09     2     3     1     8
10     0     7     7     0
11     0     6     0     8
12     0     0    14     0
13     0     0    14     0
14     0     0    14     0
15     0     0    14     0
16     5     1     2     6
17     7     2     3     2
XX
BF  T00509; MIG1                         ; yeast
XX
BA  14 binding sites out of 11 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Lundin M., Nehlin J. O., Ronne H.
RT  Importance of a flanking AT-rich region in target site recognition 
RT  by the GC box-binding zinc finger protein MIG1
RL  Mol. Cell. Biol. 14:1979-1985 (1994).
XX
//
AC  M00062
XX
ID  V$IRF1_01
XX
NA  IRF-1
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     8    12     1
02     9     0     0     0
03    21     0     0     0
04    21     0     0     0
05    21     0     0     0
06     1     4    12     1
07     0    10     0    11
08     1     0    19     0
09    21     0     0     0
10    20     1     0     0
11    21     0     0     0
12     1    14     6     0
13     1    13     1     6
XX
BF  T00422; IRF-1                        ; mouse
BF  T00423; IRF-1                        ; human
BF  T00424; IRF-1                        ; rat
XX
BA  21 selected binding sequences
XX
CC  5 rounds of binding and PCR amplification from random 26-mers
XX
RN  [1]
RA  Tanaka N., Kawakami T., Taniguchi T.
RT  Recognition DNA sequences of interferon regulatory factor 1 
RT  (IRF-1) and IRF-2, regulators of cell growth and the interferon system
RL  Mol. Cell. Biol. 13:4531-4538 (1993).
XX
//
AC  M00063
XX
ID  V$IRF2_01
XX
NA  IRF-2
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     1    14     0
02     4     0     0     0
03    15     0     0     0
04    15     0     0     0
05    15     0     0     0
06     0     1    12     0
07     0     7     0     8
08     0     0    15     0
09    15     0     0     0
10    15     0     0     0
11    15     0     0     0
12     0     8     7     0
13     0     8     2     5
XX
BF  T00425; IRF-2                        ; mouse
XX
BA  15 selected binding sequences
XX
CC  5 rounds of binding and PCR amplification from random 26-mers
XX
RN  [1]
RA  Tanaka N., Kawakami T., Taniguchi T.
RT  Recognition DNA sequences of interferon regulatory factor 1 
RT  (IRF-1) and IRF-2, regulators of cell growth and the interferon system
RL  Mol. Cell. Biol. 13:4531-4538 (1993).
XX
//
AC  M00064
XX
ID  F$PHO4_01
XX
NA  PHO4
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     2     1     4
02     3     2     2     1
03     2     3     3     0
04     0     8     0     0
05     8     0     0     0
06     0     8     0     0
07     0     0     8     0
08     0     0     0     8
09     0     0     5     3
10     0     2     4     2
11     1     0     5     2
12     2     2     2     2
XX
BF  T00690; PHO4                         ; yeast
XX
BA  8 binding sites from 4 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Fisher F., Goding C. R.
RT  Single amino acid substitutions alter helix--loop--helix protein 
RT  specificity for bases flanking the core CANNTG motif
RL  EMBO J. 11:4103-4109 (1992).
XX
//
AC  M00065
XX
ID  V$TAL1BETAE47_01
XX
NA  Tal-1beta/E47
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    23    35    28    14
02    15    30    23    32
03    14    23    44    19
04    66     9    14    11
05    61    30     3     6
06     0   100     0     0
07   100     0     0     0
08     0     0   100     0
09    86     1    10     3
10     0     0     0   100
11     0     0   100     0
12     1     3    61    35
13     3    17     1    79
14    20    43    17    20
15    27    23    31    19
16    23    26    32    19
XX
BF  T00207; E47                          ; human
BF  T01448; Tal-1beta                    ; human
XX
BA  44 selected binding sequences
XX
CC  random 35-mers bound by in vitro co-translated Tal-1beta and 
CC  E47 after 6 CASTing cycles; figures are percentages
XX
RN  [1]
RA  -Hsu H.-L., Huang L., Tsan J. T., Funk W., Wright W. E., Hu 
RA  J.-S., Kingston R. E., Baer R.
RT  Preferred sequences for DNA recognition by the TAL1 helix-loop-helix 
RT  proteins
RL  Mol. Cell. Biol. 14:1256-1265 (1994).
XX
//
AC  M00066
XX
ID  V$TAL1ALPHAE47_01
XX
NA  Tal-1alpha/E47
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    18    10    35    37
02    14    40    17    29
03    12    26    41    21
04    59     8    27     6
05    65    26     9     0
06     0   100     0     0
07   100     0     0     0
08     0     0    95     4
09    86     6     8     0
10     0     0     0   100
11     0     0   100     0
12     1     3    56    40
13     0    17     4    79
14    19    34    35    12
15    34    24    19    23
16    17    39    30    14
XX
BF  T00207; E47                          ; human
BF  T00790; Tal-1                        ; human
XX
BA  35 selected binding sequences
XX
CC  random 35-mers bound by in vitro co-translated Tal-1alpha and 
CC  E47 after 6 CASTing cycles; figures are percentages
XX
RN  [1]
RA  -Hsu H.-L., Huang L., Tsan J. T., Funk W., Wright W. E., Hu 
RA  J.-S., Kingston R. E., Baer R.
RT  Preferred sequences for DNA recognition by the TAL1 helix-loop-helix 
RT  proteins
RL  Mol. Cell. Biol. 14:1256-1265 (1994).
XX
//
AC  M00067
XX
ID  I$HAIRY_01
XX
NA  hairy
XX
DT  hiwi (created); 13.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    20    30    35    15
02    26    30    26    17
03    12    16    56    16
04    19    15    58     8
05     0    96     0     4
06    81    12     0     8
07     0   100     0     0
08     3     0    93     3
09     0    83     7    10
10     0    12    71    17
11    36    41    18     5
12     5    62    24    10
13    47    21    11    21
14    15    15    31    38
XX
BF  T00345; H                            ; fruit fly
XX
BA  29 selected binding sequences
XX
CC  random tetradekamers bound by bacterially expressed hairy protein; 
CC  figures are percentages
XX
RN  [1]
RA  Van Doren M., Bailey A. M., Esnayra J., Ede K., Posakony J. W.
RT  Negative regulation of proneural gene activity: hairy is a direct 
RT  transcriptional repressor of achaete
RL  Genes Dev. 8:2729-2742 (1994).
XX
//
AC  M00068
XX
ID  V$HEN1_01
XX
NA  HEN1
XX
DT  ewi (created); 13.04.95.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01    31    21    18    31
02    18    18    21    44
03    22    17    44    17
04     7     0    84     9
05     7     0    82    11
06    18    20    35    27
07    21    78     0     0
08    11    29    33    27
09     0   100     0     0
10   100     0     0     0
11     2     8    83     8
12    13    75    12     0
13     0     0     0   100
14     0     0   100     0
15    12    58    17    13
16     0     2    71    27
17    21    29    25    25
18     2    77     4    17
19    12    71     4    14
20    19    58     8    15
21    15    30    20    35
22    20    30    23    27
XX
BF  T01447; HEN1                         ; rat
XX
BA  51 selected binding sequences
XX
CC  oligonucleotides bound to in vivo-produced HEN1 (COS1 cells) 
CC  isolated by CASTing; figures are percentages
XX
RN  [1]
RA  Brown L., Baer R.
RT  HEN1 encodes a 20-kilodalton phosphoprotein that binds an extended 
RT  E-box motif as a homodimer
RL  Mol. Cell. Biol. 14:12 (1994).
XX
//
AC  M00069
XX
ID  V$YY1_02
XX
NA  YY1
XX
DT  ewi (created); 13.04.95.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01     2     4     2     3
02     2     5     2     2
03     2     2     4     3
04     1     7     3     0
05     1     2     6     2
06     2     0     9     0
07     0    11     0     0
08     0    11     0     0
09    11     0     0     0
10     0     0     0    11
11     0     8     2     1
12     1     1     1     8
13     2     0     2     7
14     0     3     7     1
15     2     2     4     3
16     2     6     1     2
17     1     1     1     8
18     1     4     5     1
19     2     4     3     2
20     4     0     2     5
XX
BF  T00278; delta factor                 ; mouse
BF  T00915; YY1                          ; human
XX
BA  11 activating binding sites from 8 cellular genes, 1 viral genome 
BA  and 2 retrotransposon elements
XX
CC  compiled sequences
XX
RN  [1]
RA  Shrivastava A., Calame K.
RT  An analysis of genes regulated by the multi-functional transcriptional 
RT  regulator Yin Yang-1
RL  Nucleic Acids Res. 22:5151-5155 (1994).
XX
//
AC  M00070
XX
ID  V$TAL1BETAITF2_01
XX
NA  Tal-1beta/ITF-2
XX
DT  ewi (created); 18.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    10    32    43    15
02    12    28    35    25
03    19    23    37    21
04    74     0    14    12
05    72    21     5     2
06     0   100     0     0
07   100     0     0     0
08     0     0    98     2
09    95     2     3     0
10     0     0     0   100
11     0     0   100     0
12     0     3    63    34
13     0    30     0    70
14    17    39    20    24
15    25    21    14    40
16    16    35    26    23
XX
BF  T00433; ITF-2                        ; human
BF  T01448; Tal-1beta                    ; human
XX
BA  59 selected binding sequences
XX
CC  random 35-mers bound by in vitro co-translated Tal-1beta and 
CC  ITF-2 (E2-2) after 6 CASTing cycles; figures are percentages
XX
RN  [1]
RA  -Hsu H.-L., Huang L., Tsan J. T., Funk W., Wright W. E., Hu 
RA  J.-S., Kingston R. E., Baer R.
RT  Preferred sequences for DNA recognition by the TAL1 helix-loop-helix 
RT  proteins
RL  Mol. Cell. Biol. 14:1256-1265 (1994).
XX
//
AC  M00071
XX
ID  V$E47_02
XX
NA  E47
XX
DT  ewi (created); 18.04.95.
DT  ewi (updated); 27.04.95.
XX
PO     A     C     G     T
01    41    24    17    17
02    31    24    14    31
03    17    17    30    36
04    50    26     7    17
05    50    14    33     3
06     0   100     0     0
07   100     0     0     0
08     0     5    92     3
09     0    16    84     0
10     0     0     0   100
11     0     0   100     0
12     0    24    13    63
13    20     3     8    69
14    34    46    11     9
15    34    27    24    15
16    25    37    22    16
XX
BF  T00207; E47                          ; human
XX
BA  38 selected binding sequences
XX
CC  random 35-mers bound by in vitro translated E47 after 6 CASTing 
CC  cycles; figures are percentages
XX
RN  [1]
RA  -Hsu H.-L., Huang L., Tsan J. T., Funk W., Wright W. E., Hu 
RA  J.-S., Kingston R. E., Baer R.
RT  Preferred sequences for DNA recognition by the TAL1 helix-loop-helix 
RT  proteins
RL  Mol. Cell. Biol. 14:1256-1265 (1994).
XX
//
AC  M00072
XX
ID  V$CP2_01
XX
NA  CP2
XX
DT  ewi (created); 21.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     1     5     0
02     0     5     1     0
03     2     2     0     2
04     2     4     0     0
05     2     0     2     2
06     5     1     0     0
07     2     3     1     0
08     0     6     0     0
09     2     4     0     0
10     6     0     0     0
11     6     0     0     0
XX
BF  T00152; CP2                          ; mouse
XX
BA  6 binding sites from the murine alpha-globin gene promoter
XX
CC  compiled sequences
XX
RN  [1]
RA  Kim C. G., Swendeman S. L., Barnhart K. M., Sheffery M.
RT  Promoter elements and erythroid cell nuclear factors that regulate 
RT  alpha-globin gene transcription in vitro
RL  Mol. Cell. Biol. 10:5958-5966 (1990).
XX
//
AC  M00073
XX
ID  V$DELTAEF1_01
XX
NA  deltaEF1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    32    22    14    32
02    20    39     7    34
03    15    24    15    46
04     0    83     3    14
05    97     0     0     3
06     0   100     0     0
07     0    97     3     0
08     0     0     0   100
09    24     5    39    32
10    54    12    22    12
11    39    20    27    12
XX
BF  T01467; deltaEF1                     ; chick
XX
BA  41 selected binding sequences
XX
CC  3 rounds of selection of random 15-mers bound to bacterially 
CC  expressed C-terminal zinc finger domain of GST-deltaEF1 fusion 
CC  protein; figures are percentages
XX
RN  [1]
RA  Sekido R., Murai K., Funahashi J.-i., Kamachi Y., Fujisawa-Sehara 
RA  A., Nabeshima Y.-I., Kondoh H.
RT  The delta-crystallin enhancer-binding protein deltaEF1 is a 
RT  repressor of E2-box-mediated gene activation
RL  Mol. Cell. Biol. 14:5692-5700 (1994).
XX
//
AC  M00074
XX
ID  V$CETS1P54_02
XX
NA  c-Ets-1(p54)
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     9    11     9     4
02     9    11     6     9
03    19     4     4     9
04    10    20     6     2
05    13    21     1     5
06     0     0    40     0
07     0     0    40     0
08    40     0     0     0
09    23     0     0    17
10    15     5    15     4
11    10     8     1    20
12     9     5     7    15
13    12     9     7     7
XX
BF  T00114; c-Ets-1 54                   ; chick
XX
BA  40 selected binding sequences
XX
CC  3 rounds of selection of random oligonucleotides
XX
RN  [1]
RA  Woods D. B., Ghysdael J., Owen M. J.
RT  Identification of nucleotide preferences in DNA sequences recognised 
RT  specifially by c-Ets-1 protein
RL  Nucleic Acids Res. 20:699-704 (1992).
XX
//
AC  M00075
XX
ID  V$GATA1_01
XX
NA  GATA-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     5    22    20     6
02    11    17    20     5
03    11    15    10    17
04     0     0    53     0
05    50     1     0     2
06     1     1     1    50
07    18     6    18    11
08     6    14    24     9
09     6    14    18    14
10     7    11    19    15
XX
BF  T00305; GATA-1                       ; mouse
XX
BA  53 selected binding sequences
XX
RN  [1]
RA  Merika M., Orkin S. H.
RT  DNA-binding specificity of GATA family transcription factors
RL  Mol. Cell. Biol. 13:3999-4010 (1993).
XX
//
AC  M00076
XX
ID  V$GATA2_01
XX
NA  GATA-2
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     6    16    18    13
02    15    18    18     2
03    13    12    18    10
04     0     4    49     0
05    52     0     0     1
06     0     1     0    52
07    27     6    14     6
08     7    13    23    10
09     5    20    15    13
10     7    13    19    14
XX
BF  T00308; GATA-2                       ; human
XX
BA  53 selected binding sequences
XX
RN  [1]
RA  Merika M., Orkin S. H.
RT  DNA-binding specificity of GATA family transcription factors
RL  Mol. Cell. Biol. 13:3999-4010 (1993).
XX
//
AC  M00077
XX
ID  V$GATA3_01
XX
NA  GATA-3
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    16    14    24     9
02    26    13     9    15
03     0     0    63     0
04    62     0     0     1
05     1     0     3    59
06    35     2    10    16
07    17     5    33     8
08    10    11    26    16
09    15     7    34     7
XX
BF  T00311; GATA-3                       ; human
XX
BA  63 selected binding sequences
XX
RN  [1]
RA  Merika M., Orkin S. H.
RT  DNA-binding specificity of GATA family transcription factors
RL  Mol. Cell. Biol. 13:3999-4010 (1993).
XX
//
AC  M00078
XX
ID  V$EVI1_01
XX
NA  Evi-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     7     0     1     5
02     0     0    13     0
03    13     0     0     0
04     0     5     1     7
05    12     0     0     1
06    13     0     0     0
07     0     0    13     0
08    13     0     0     0
09     0     3     0    10
10    11     0     0     2
11    13     0     0     0
12     0     0    13     0
13    13     0     0     0
14     0     1     1    11
15    11     1     0     1
16    11     1     0     1
XX
BF  T00273; Evi-1                        ; mouse
XX
BA  13 selected binding sequences
XX
CC  6 rounds of selection of random 35-mers bound to bacterially 
CC  expressed fusion protein of GST and the N-terminal zinc finger 
CC  domain of Evi-1; sequences that yield to a 15-Nt consensus
XX
RN  [1]
RA  Delwel R., Funabiki T., Kreider B. L., Morishita K., Ihle J. N.
RT  Four of the seven zinc fingers of the Evi-1 myeloid-transforming 
RT  gene are required for sequence-specific binding to GA(C/T)AAG
RT  A(T/C)AAGATAA
RL  Mol. Cell. Biol. 13:4291-4300 (1993).
XX
//
AC  M00079
XX
ID  V$EVI1_02
XX
NA  Evi-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     8     1     2     3
02     0     0    13     1
03    14     0     0     0
04     0     7     0     7
05    14     0     0     0
06    14     0     0     0
07     0     0    14     0
08    14     0     0     0
09     0     3     0    11
10    13     1     0     0
11    11     0     3     0
XX
BF  T00273; Evi-1                        ; mouse
XX
BA  13 selected binding sequences
XX
CC  6 rounds of selection of random 35-mers bound to bacterially 
CC  expressed fusion protein of GST and the N-terminal zinc finger 
CC  domain of Evi-1; sequences that yield to a 10-Nt consensus
XX
RN  [1]
RA  Delwel R., Funabiki T., Kreider B. L., Morishita K., Ihle J. N.
RT  Four of the seven zinc fingers of the Evi-1 myeloid-transforming 
RT  gene are required for sequence-specific binding to GA(C/T)AAG
RT  A(T/C)AAGATAA
RL  Mol. Cell. Biol. 13:4291-4300 (1993).
XX
//
AC  M00080
XX
ID  V$EVI1_03
XX
NA  Evi-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    23     0     0     4
02     0     0    27     0
03    27     0     0     0
04     0     2     0    25
05    26     0     0     1
06    27     0     0     0
07     0     0    27     0
08    27     0     0     0
09     0     0     0    27
10    26     0     0     1
11    19     1     4     3
XX
BF  T00273; Evi-1                        ; mouse
XX
BA  27 selected binding sequences
XX
CC  random 15-mers bound to bacterially expressed GST-fusion protein 
CC  of Evi-1 zinc fingers 5 to 7
XX
RN  [1]
RA  Delwel R., Funabiki T., Kreider B. L., Morishita K., Ihle J. N.
RT  Four of the seven zinc fingers of the Evi-1 myeloid-transforming 
RT  gene are required for sequence-specific binding to GA(C/T)AAG
RT  A(T/C)AAGATAA
RL  Mol. Cell. Biol. 13:4291-4300 (1993).
XX
//
AC  M00081
XX
ID  V$EVI1_04
XX
NA  Evi-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     3     0     3     2
02     2     0     6     0
03     6     1     0     1
04     1     1     0     6
05     7     0     0     1
06     3     0     2     3
07     2     0     6     0
08     6     0     0     2
09     2     2     0     4
10     5     0     0     3
11     5     0     2     1
12     2     0     6     0
13     6     0     0     2
14     2     0     0     6
15     6     1     0     1
XX
BF  T00273; Evi-1                        ; mouse
XX
BA  8 selected binding sequences
XX
CC  random 15-mers bound to bacterially expressed GST-fusion protein 
CC  of Evi-1 zinc fingers 4 to 6; sequences yielding a 14-Nt consensus
XX
RN  [1]
RA  Delwel R., Funabiki T., Kreider B. L., Morishita K., Ihle J. N.
RT  Four of the seven zinc fingers of the Evi-1 myeloid-transforming 
RT  gene are required for sequence-specific binding to GA(C/T)AAG
RT  A(T/C)AAGATAA
RL  Mol. Cell. Biol. 13:4291-4300 (1993).
XX
//
AC  M00082
XX
ID  V$EVI1_05
XX
NA  Evi-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    14     0     1     4
02     1     0    18     0
03    18     1     0     0
04     0     4     0    15
05    18     0     0     1
06    15     0     1     3
07     1     0    18     0
08    18     0     0     1
09     1     0     0    18
10    18     0     0     1
11     7     1     6     4
XX
BF  T00273; Evi-1                        ; mouse
XX
BA  19 selected binding sequences
XX
CC  random 15-mers bound to bacterially expressed GST-fusion protein 
CC  of Evi-1 zinc fingers 4 to 6; sequences giving rise to a 10-Nt consensus
XX
RN  [1]
RA  Delwel R., Funabiki T., Kreider B. L., Morishita K., Ihle J. N.
RT  Four of the seven zinc fingers of the Evi-1 myeloid-transforming 
RT  gene are required for sequence-specific binding to GA(C/T)AAG
RT  A(T/C)AAGATAA
RL  Mol. Cell. Biol. 13:4291-4300 (1993).
XX
//
AC  M00083
XX
ID  V$MZF1_01
XX
NA  MZF1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     8     3     6     3
02     4     2    11     3
03     3     3     5     9
04     0     0    20     0
05     1     0    18     1
06     0     0    19     1
07     0     0    20     0
08    18     1     1     0
XX
BF  T00529; MZF-1                        ; human
XX
BA  20 selected binding sequences
XX
CC  14-mers bound to bacterially expressed MZF1 zinc fingers 1-4
XX
RN  [1]
RA  Morris J. F., Hromas R., Rauscher III F. J.
RT  Characterization of the DNA-binding properties of the myeloid 
RT  zinc finger protein MZF1: two independent DNA-binding domains 
RT  recognize two DNA consensus sequences with a common G-rich core
RL  Mol. Cell. Biol. 14:1786-1795 (1994).
XX
//
AC  M00084
XX
ID  V$MZF1_02
XX
NA  MZF1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     2     1     7     6
02     3     2     7     4
03     4     1     8     3
04     2     4     4     6
05     0     0    10     6
06    13     0     3     0
07     1     0    12     3
08     0     0    15     1
09     1     1    14     0
10     1     0    13     2
11     3     4     7     2
12    11     0     2     3
13    10     3     2     1
XX
BA  16 selected binding sequences
XX
CC  random 14-mers bound to bacterially expressed MZF1 zinc fingers 5-13
XX
RN  [1]
RA  Morris J. F., Hromas R., Rauscher III F. J.
RT  Characterization of the DNA-binding properties of the myeloid 
RT  zinc finger protein MZF1: two independent DNA-binding domains 
RT  recognize two DNA consensus sequences with a common G-rich core
RL  Mol. Cell. Biol. 14:1786-1795 (1994).
XX
//
AC  M00085
XX
ID  V$ZID_01
XX
NA  ZID
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     3    12     9    11
02     2     5    28     0
03     1     0    31     3
04     0    35     0     0
05     1     0     0    34
06     0    35     0     0
07     3    15     1    16
08    32     1     1     1
09     0     3     8    24
10     1    23     7     4
11    23     0     7     5
12     0    15     0    20
13     4    26     2     3
XX
BF  T01468; ZID                          ; human
XX
BA  35 selected binding sequences
XX
RN  [1]
RA  Bardwell V. J., Treisman R.
RT  The POZ domain: A conserved protein--protein interaction motif
RL  Genes Dev. 8:1664-1677 (1994).
XX
//
AC  M00086
XX
ID  V$IK1_01
XX
NA  Ik-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     7     5     7     5
02     6     9     0     9
03     3     3     7    11
04     2     6     1    15
05     2     0    22     0
06     0     0    24     0
07     0     0    24     0
08    24     0     0     0
09    22     0     0     2
10     3     4     2    15
11    11     2     8     3
12     3    13     2     6
13     3    14     3     4
XX
BF  T01469; Ik-1                         ; mouse
XX
BA  24 selected binding sequences
XX
CC  5 rounds of selection of 15-mers bound to bacterially expressed 
CC  GST-Ik-1 fusion protein
XX
RN  [1]
RA  Molnr ., Georgopoulos K.
RT  The Ikaros gene encodes a family of functionally diverse zinc 
RT  finger DNA-binding proteins
RL  Mol. Cell. Biol. 14:8292-8303 (1994).
XX
//
AC  M00087
XX
ID  V$IK2_01
XX
NA  Ik-2
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     9    10    12     5
02    11     5     7    13
03     5     7     7    17
04     6    10     0    20
05     6     0    30     0
06     0     0    36     0
07     0     0    36     0
08    36     0     0     0
09    18     5     1    12
10    10     7     6    13
11    12     8     9     7
12     9    18     5     4
XX
BF  T01470; Ik-2                         ; mouse
XX
BA  36 selected binding sequences
XX
CC  5 rounds of selection of 15-mers bound to bacterially expressed 
CC  GST-Ik-2 fusion protein
XX
RN  [1]
RA  Molnr ., Georgopoulos K.
RT  The Ikaros gene encodes a family of functionally diverse zinc 
RT  finger DNA-binding proteins
RL  Mol. Cell. Biol. 14:8292-8303 (1994).
XX
//
AC  M00088
XX
ID  V$IK3_01
XX
NA  Ik-3
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     3     0     7    15
02     8     8     5     4
03     0    13     3     9
04     6     5     0    14
05     5     0    20     0
06     0     0    25     0
07     0     0    25     0
08    25     0     0     0
09    25     0     0     0
10     0     7     0    18
11    16     0     5     4
12     1    18     0     6
13     1    17     0     7
XX
BF  T01471; Ik-3                         ; mouse
XX
BA  25 selected binding sequences
XX
CC  5 rounds of selection of 15-mers bound to bacterially expressed 
CC  GST-Ik-3 fusion protein
XX
RN  [1]
RA  Molnr ., Georgopoulos K.
RT  The Ikaros gene encodes a family of functionally diverse zinc 
RT  finger DNA-binding proteins
RL  Mol. Cell. Biol. 14:8292-8303 (1994).
XX
//
AC  M00089
XX
ID  P$ATHB1_01
XX
NA  Athb-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     7     3     3     4
02     1     5     3    10
03     4     5     6     4
04     3    13     4     3
05    22     1     0     1
06    25     0     0     0
07     0     0     0    25
08     0     5     0    20
09    25     0     0     0
10     0     0     0    25
11     0     0     0    25
12     3     1    12     0
13     2     8     4     1
14     8     1     3     1
XX
BF  T01474; Athb-1                       ; mouse-ear cress
XX
BA  24 selected binding sequences
XX
CC  4 rounds of selection of 15-mers bound to bacterially expressed 
CC  GST-Athb-1 fusion protein
XX
RN  [1]
RA  Sessa G., Morelli G., Ruberti I.
RT  The Athb-1 and -2 HD-Zip domains homodimerize forming complexes 
RT  of different DNA binding specificities
RL  EMBO J. 12:3507-3517 (1993).
XX
//
AC  M00090
XX
ID  I$ABDB_01
XX
NA  Abd-B
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     8     5     8     3
02     3    12    11     3
03     9     9     9     7
04     0     1     7    28
05     4     2     4    29
06    11     2     8    24
07    36     2     0     7
08     6     7     1    31
09     2     2    30     9
10    10     4    24     4
11     1    32     6     1
12     8    10    11     7
13    11     8     8     4
14     5     9     7     6
XX
BF  T01476; Abd-B                        ; fruit fly
XX
BA  45 selected binding sequences
XX
CC  2 rounds of selection of 18-mers bound to bacterially expressed Abd-B protein
XX
RN  [1]
RA  Ekker S. C., Jackson D. G., von Kessler D. P., Sun B. I., Young 
RA  K. E., Beachy P. A.
RT  The degree of variation in DNA sequence recognition among four 
RT  Drosophila homeotic proteins
RL  EMBO J. 13:3551-3560 (1994).
XX
//
AC  M00091
XX
ID  I$BRCZ1_01
XX
NA  BR-C Z1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     5     0     0     4
02     3     1     2     3
03     3     1     4     1
04     1     1     1     6
05     5     2     1     1
06     7     0     1     1
07     3     0     0     6
08     6     0     0     3
09     4     1     4     0
10     7     0     1     1
11     1     8     0     0
12     9     0     0     0
13     8     0     1     0
14     5     0     3     1
15     4     0     0     5
16     2     3     2     2
17     3     2     0     4
18     3     3     2     1
XX
BF  T01477; BR-C Z1                      ; fruit fly
XX
BA  9 binding sites within the Pig-1/Sgs-4 intergenic region
XX
CC  compiled sequences, bound in vitro by bacterially expressed protein
XX
RN  [1]
RA  von Kalm L., Crossgrove K., Von Seggern D., Guild G. M., Beckendorf 
RA  S. K.
RT  The Broad-Complex directly controls a tissue-specific response 
RT  to the steroid hormone ecdysone at the onset of Drosophila metamorpho
RT  sis
RL  EMBO J. 13:3505-3516 (1994).
XX
//
AC  M00092
XX
ID  I$BRCZ2_01
XX
NA  BR-C Z2
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     1     3     5
02     2     3     2     5
03     0     5     3     4
04     2     1     2     7
05     2     1     3     6
06     3     1     1     7
07     5     2     1     4
08     0    10     0     2
09     0     1     0    11
10    12     0     0     0
11     1     1     2     8
12     2     0     1     9
13     1     2     1     8
14     2     2     3     5
15     1     0     3     8
16     1     3     1     7
XX
BF  T01478; BR-C Z2                      ; fruit fly
XX
BA  12 binding sites within the Pig-1/Sgs-4 intergenic region
XX
CC  compiled sequences, bound in vitro by bacterially expressed protein
XX
RN  [1]
RA  von Kalm L., Crossgrove K., Von Seggern D., Guild G. M., Beckendorf 
RA  S. K.
RT  The Broad-Complex directly controls a tissue-specific response 
RT  to the steroid hormone ecdysone at the onset of Drosophila metamorpho
RT  sis
RL  EMBO J. 13:3505-3516 (1994).
XX
//
AC  M00093
XX
ID  I$BRCZ3_01
XX
NA  BR-C Z3
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     2     3     4
02     6     1     3     2
03     4     3     3     2
04     3     1     1     7
05     9     2     1     0
06    10     0     0     2
07    12     0     0     0
08     0    10     1     1
09     4     0     0     8
10    10     0     0     2
11     6     0     4     2
12     6     1     2     3
13     4     3     2     3
14     2     3     5     2
15     5     3     1     3
XX
BF  T01479; BR-C Z3                      ; fruit fly
XX
BA  12 binding sites within the Pig-1/Sgs-4 intergenic region
XX
CC  compiled sequences, bound in vitro by bacterially expressed protein
XX
RN  [1]
RA  von Kalm L., Crossgrove K., Von Seggern D., Guild G. M., Beckendorf 
RA  S. K.
RT  The Broad-Complex directly controls a tissue-specific response 
RT  to the steroid hormone ecdysone at the onset of Drosophila metamorpho
RT  sis
RL  EMBO J. 13:3505-3516 (1994).
XX
//
AC  M00094
XX
ID  I$BRCZ4_01
XX
NA  BR-C Z4
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     3     0     0     3
02     2     1     0     3
03     3     0     1     2
04     3     0     2     1
05     0     0     2     4
06     6     0     0     0
07     6     0     0     0
08     6     0     0     0
09     0     3     2     1
10     4     0     1     1
11     3     1     0     2
12     5     0     0     1
13     4     0     0     2
XX
BF  T01480; BR-C Z4                      ; fruit fly
XX
BA  6 binding sites within the Pig-1/Sgs-4 intergenic region
XX
CC  compiled sequences, bound in vitro by bacterially expressed protein
XX
RN  [1]
RA  von Kalm L., Crossgrove K., Von Seggern D., Guild G. M., Beckendorf 
RA  S. K.
RT  The Broad-Complex directly controls a tissue-specific response 
RT  to the steroid hormone ecdysone at the onset of Drosophila metamorpho
RT  sis
RL  EMBO J. 13:3505-3516 (1994).
XX
//
AC  M00095
XX
ID  V$CDP_01
XX
NA  CDP
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     1    16     0     1
02     0    17     0     1
03    17     0     0     1
04    17     1     0     0
05     0     0     0    18
06    18     0     0     0
07    17     0     0     1
08     0     3     0    15
09     0    14     2     2
10     5     0    13     0
11    14     0     1     3
12     1     1     2    14
XX
BF  T00100; CDP                          ; human
XX
BA  18 selected binding sequences with anchored ATA trinucleotide
XX
CC  5 rounds of selection with bacterially expressed GST-CDP CR1 
CC  (cut repeat 1) fusion protein
XX
RN  [1]
RA  Aufiero B., Neufeld E. J., Orkin S. H.
RT  Sequence-specific DNA binding of individual cut repeats of the 
RT  human CCAAT displacement/ cut homeodomain protein
RL  Proc. Natl. Acad. Sci. USA 91:7757-7761 (1994).
XX
//
AC  M00096
XX
ID  V$PBX1_01
XX
NA  Pbx-1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    12     1     0     3
02     3     4     1     8
03     1     9     2     4
04    13     1     0     2
05    14     0     0     2
06     2     0     0    14
07     4    10     0     2
08    14     0     1     1
09    10     0     0     6
XX
BF  T01481; Pbx-1                        ; human
XX
BA  16 selected binding sequences
XX
RN  [1]
RA  Van Dijk M. A., Voorhoeve M., Murre C.
RT  Pbx1 is converted into a transcriptional activator upon acquiring 
RT  the N-terminal region of E2A in pre-B-cell acute lymphoblastoid 
RT  leukemia
RL  Proc. Natl. Acad. Sci. USA 90:6061-6065 (1993).
XX
//
AC  M00097
XX
ID  V$PAX6_01
XX
NA  Pax-6
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    14     7     6    10
02    21     9     3    10
03    10     9    10    18
04     8    14     9    16
05     3     2     4    38
06     2     0     1    44
07     3    29     1    14
08    40     5     1     1
09     3    39     0     5
10     1     0    44     2
11     1    36     7     2
12    23     2     1    21
13     1     4     0    42
14     2    13    26     3
15    40     1     6     0
16    14    11    15     7
17     2     4     3    37
18     1     0    20    25
19    13    17     9     4
20    14     8     4     6
21     4    12     3     9
XX
BF  T00681; Pax-6                        ; mouse
BF  T01122; Pax-6                        ; human
XX
BA  47 selected binding sequences
XX
CC  selection from random 25-mers bound to bacterially expressed 
CC  GST-hPax-6 fusion protein
XX
RN  [1]
RA  Epstein J., Cai J., Glaser T., Jepeal L., Maas R.
RT  Identification of a Pax paired domain recognition sequence and 
RT  evidence for DNA-dependent conformational changes
RL  J. Biol. Chem. 269:8355-8361 (1994).
XX
//
AC  M00098
XX
ID  V$PAX2_01
XX
NA  Pax-2
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     7    10     4     6
02     5    10     7     9
03     7     8     2    15
04     8    10     6     8
05     8     1    19     4
06     5     2     0    25
07     1    20     3     8
08    21     3     3     5
09     6    13     3    10
10     3     3    20     6
11     3    13     7     7
12    14     1    11     4
13     4     5     3    18
14     4     3    14     8
15    18     5     2     4
16     3     8     5     9
17     0     5     7     6
18     3     3     5     2
19     3     3     2     2
XX
BF  T00678; Pax-2                        ; mouse
XX
BA  32 selected binding sequences
XX
CC  selection from random 25-mers bound to bacterially expressed 
CC  GST-mPax-2 fusion protein
XX
RN  [1]
RA  Epstein J., Cai J., Glaser T., Jepeal L., Maas R.
RT  Identification of a Pax paired domain recognition sequence and 
RT  evidence for DNA-dependent conformational changes
RL  J. Biol. Chem. 269:8355-8361 (1994).
XX
//
AC  M00099
XX
ID  V$S8_01
XX
NA  S8
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     6     2     2     7
02    12     7     4    15
03    11     7    13    14
04    25     4     8    10
05    14    14    12    10
06     6    20     5    20
07     1    27     0    25
08    52     2     3     0
09    59     0     0     0
10     0     0     0    59
11     0     0     0    59
12    59     0     0     0
13    16     3    14     8
14     1    10     3     5
15     2     6     4     3
16     4     1     2     5
XX
BF  T01483; S8                           ; mouse
XX
BA  59 selected binding sequences
XX
CC  3 rounds of selection from random dodekamers bound to the bacterially 
CC  expressed S8 homeodomain
XX
RN  [1]
RA  de Jong R., van der Heijden J., Meijlink F.
RT  DNA-binding specificity of the S8 homeodomain
RL  Nucleic Acids Res. 21:4711-4720 (1993).
XX
//
AC  M00100
XX
ID  V$CDXA_01
XX
NA  CdxA
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     9     6     2     2
02     4     0     1    14
03     1     0     0    18
04     4     0     2    13
05    11     3     4     1
06     4     3     2    10
07     6     3     9     1
XX
BF  T01484; CdxA                         ; chick
XX
BA  19 selected binding sequences
XX
CC  3 rounds of selection from random 20-mers bound to bacterially 
CC  expressed GST-CdxA fusion protein
XX
RN  [1]
RA  Margalit Y., Yarus S., Shapira E., Gruenbaum Y., Fainsod A.
RT  Isolation and characterization of target sequences of the chicken 
RT  CdxA homeobox gene
RL  Nucleic Acids Res. 21:4915-4922 (1993).
XX
//
AC  M00101
XX
ID  V$CDXA_02
XX
NA  CdxA
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    20     3     3    10
02    16     0     2    18
03     9     0     0    27
04    17     0     2    17
05    22    14     0     0
06     2     7     3    24
07    17     0    16     3
XX
BF  T01484; CdxA                         ; chick
XX
BA  18 selected synthetic and genomic binding sequences
XX
CC  3 rounds of selection from random 20-mers bound to bacterially 
CC  expressed GST-CdxA fusion protein plus sequences from 4 rounds 
CC  of selection of genomic binding sites
XX
RN  [1]
RA  Margalit Y., Yarus S., Shapira E., Gruenbaum Y., Fainsod A.
RT  Isolation and characterization of target sequences of the chicken 
RT  CdxA homeobox gene
RL  Nucleic Acids Res. 21:4915-4922 (1993).
XX
//
AC  M00102
XX
ID  V$CDP_02
XX
NA  CDP
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    33     8    17    42
02    46    11    10    33
03    19     8    29    44
04   100     0     0     0
05     0     0     0   100
06     4    77     0    19
07     0     0   100     0
08   100     0     0     0
09     0     0     0   100
10    15    25     2    58
11    90     2     6     2
12    19     9    25    46
13    18    32     2    48
14    31     8    21    40
15    29    15    10    46
XX
BA  86 selected binding sequences
XX
CC  9 rounds of selection from random 15-mers bound to CDP overexpressed 
CC  in COS cells; figures are percentages
XX
RN  [1]
RA  Andrs V., Chiara M. D., Mahdavi V.
RT  A new bipartite DNA-binding domain: cooperative interaction 
RT  between the cut repeat and homeo domain of the cut homeo proteins
RL  Genes Dev. 8:245-257 (1994).
XX
//
AC  M00103
XX
ID  V$CLOX_01
XX
NA  Clox
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01    27    11    21    41
02    45    16    12    27
03    17     6    24    53
04   100     0     0     0
05     0     0     0   100
06     1    73     0    26
07     0     0   100     0
08   100     0     0     0
09     0     0     0   100
10     8    20     2    70
11    86     2     4     8
12    18    11    23    48
13    11    32     6    51
14    21    10    27    42
15    37    10    12    41
XX
BF  T01485; Clox                         ; dog
XX
BA  138 selected binding sequences
XX
CC  9 rounds of selection from random 15-mers bound to CDP overexpressed 
CC  in COS cells; figures are percentages
XX
RN  [1]
RA  Andrs V., Chiara M. D., Mahdavi V.
RT  A new bipartite DNA-binding domain: cooperative interaction 
RT  between the cut repeat and homeo domain of the cut homeo proteins
RL  Genes Dev. 8:245-257 (1994).
XX
//
AC  M00104
XX
ID  V$CDPCR1_01
XX
NA  CDP CR1
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     9     7     8     8
02    31     1     0     0
03     2     3     1    26
04     0    22     3     7
05     4     1    26     1
06    30     1     0     1
07     0     1     1    30
08     2    18     5     6
09     1     5    22     2
10     3    12     8     2
XX
BF  T00100; CDP                          ; human
XX
BA  32 selected binding sequences
XX
CC  5 rounds of selection from random 15-mers bound to bacterially 
CC  expressed GST-CDP CR1 (cut repeat 1) fusion protein
XX
RN  [1]
RA  Harada R., Brub G., Tamplin O. J., Denis-Larose C., Nepveu A.
RT  DNA-binding specificity of the cut repeats from the human cut-like 
RT  protein
RL  Mol. Cell. Biol. 15:129-140 (1995).
XX
//
AC  M00105
XX
ID  V$CDPCR3_01
XX
NA  CDP CR3
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     1    21     1     0
02    20     2     1     0
03     1    20     2     0
04     6    14     4     0
05    12     2     9     1
06    21     0     3     0
07     1     3     3    17
08    17     2     4     1
09     5     7     4     8
10     6     4    11     3
11     0     1     0    23
12    24     0     0     0
13     0     0     0    24
14     0     8     9     7
15     0     0    24     0
XX
BF  T00100; CDP                          ; human
XX
BA  24 selected binding sequences
XX
CC  5 rounds of selection from random 15-mers bound to bacterially 
CC  expressed GST-CDP CR3 (cut repeat 3) fusion protein
XX
RN  [1]
RA  Harada R., Brub G., Tamplin O. J., Denis-Larose C., Nepveu A.
RT  DNA-binding specificity of the cut repeats from the human cut-like 
RT  protein
RL  Mol. Cell. Biol. 15:129-140 (1995).
XX
//
AC  M00106
XX
ID  V$CDPCR3HD_01
XX
NA  CDP CR3+HD
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     8    11    12     2
02    28     0     4     1
03     3     0     0    30
04     3    15     3    12
05     0     3    30     0
06    33     0     0     0
07     0     0     0    33
08     0    18    10     5
09     1    13    12     6
10     1    14    13     2
XX
BF  T00100; CDP                          ; human
XX
BA  33 selected binding sequences
XX
CC  5 rounds of selection from random 15-mers bound to bacterially 
CC  expressed GST-CDP CR3 (cut repeat 3) plus HD (homeodomain) fusion protein
XX
RN  [1]
RA  Harada R., Brub G., Tamplin O. J., Denis-Larose C., Nepveu A.
RT  DNA-binding specificity of the cut repeats from the human cut-like 
RT  protein
RL  Mol. Cell. Biol. 15:129-140 (1995).
XX
//
AC  M00107
XX
ID  V$E2_01
XX
NA  E2
XX
DT  hiwi (created); 24.04.95.
DT  ewi (updated); 30.05.95.
XX
PO     A     C     G     T
01     4     4     8     1
02     5     7     3     2
03    17     0     0     0
04     3    14     0     0
05     0    17     0     0
06     6     2     8     1
07     5     3     4     5
08     5     5     1     6
09     9     4     3     1
10     4     8     2     3
11     2    12     0     3
12     0     0    17     0
13     0     0    15     2
14     0     0     0    17
15     8     1     5     3
16     4     7     3     3
XX
BF  T00205; E2                           ; BPV-1
XX
BA  17 binding sites from BPV genome
XX
CC  compiled sequences
XX
RN  [1]
RA  Li R., Knight J., Bream G., Stenlund A., Botchan M.
RT  Specific recognition nucleotides and their DNA context determine 
RT  the affinity of E2 protein for 17 binding sites in the BPV-1 genome
RL  Genes Dev. 3:510-526 (1989).
XX
//
AC  M00108
XX
ID  V$NRF2_01
XX
NA  NRF-2
XX
DT  ewi (created); 05.05.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     5     1     1     0
02     1     5     1     0
03     1     6     0     0
04     0     0     7     0
05     0     0     7     0
06     7     0     0     0
07     7     0     0     0
08     0     0     7     0
09     3     1     1     2
10     0     2     4     1
XX
BF  T00975; NRF-2                        ; human
BF  T01198; NRF-2                        ; monkey
BF  T01199; NRF-2                        ; rat
XX
BA  7 binding sites from 3 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Virbasius J. V., Virbasius C.-M. A., Scarpulla R. C.
RT  Identity of GABP with NRF-2, a multisubunit activator of cytochrome 
RT  oxidase expression, reveals a cellular role for an Ets domain 
RT  activator of viral promoters
RL  Genes Dev. 7:380-392 (1993).
XX
//
AC  M00109
XX
ID  V$CEBPB_01
XX
NA  C/EBPbeta
XX
DT  ewi (created); 05.05.95.
DT  ewi (updated); 16.05.95.
XX
PO     A     C     G     T
01     9     1     8     3
02     5     3     7     6
03     9     3     8     1
04     1     0     0    20
05     1     0     7    13
06     7     0     8     6
07     5     2     5     9
08     0     0    21     0
09     8     9     0     4
10    20     1     0     0
11    21     0     0     0
12     3     1     6    11
13     5     6     7     3
14     3     3     6     9
XX
BF  T00017; AGP/EBP                      ; mouse
BF  T00459; LAP                          ; rat
BF  T00581; NF-IL6                       ; human
XX
BA  21 binding sites from 14 cellular genes and 3 viral genomes
XX
CC  compiled sequences
XX
RN  [1]
RA  Akira S., Isshiki H., Sugita T., Tanabe O., Kinoshita S., Nishio 
RA  Y., Nakajima T., Hirano T., Kishimoto T.
RT  A nuclear factor for IL-6 expression (NF-IL6) is a member of 
RT  a C/EBP family
RL  EMBO J. 9:1897-1906 (1990).
XX
//
AC  M00110
XX
ID  I$ELF1_01
XX
NA  Elf-1
XX
DT  ewi (created); 05.05.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     1     1     2
02     1     1     2     1
03     1     0     2     2
04     2     0     1     2
05     2     1     1     1
06     0     2     1     2
07     0     0     4     1
08     0     0     5     0
09     0     0     0     5
10     1     0     1     3
11     0     0     0     5
12     1     1     0     3
13     1     0     3     1
14     2     1     0     2
15     3     1     1     0
16     1     1     1     2
XX
BF  T01019; Elf-1                        ; fruit fly
XX
BA  5 binding sites from 2 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Dynlacht B. D., Attardi L. D., Admon A., Freeman M., Tjian R.
RT  Functional analysis of NTF-1, a developmentally regulated Drosophila 
RT  transcription factor that binds neuronal cis elements
RL  Genes Dev. 3:1677-1688 (1989).
XX
//
AC  M00111
XX
ID  I$CF1_01
XX
NA  CF1 / USP
XX
DT  ewi (created); 11.05.95.
DT  ewi (updated); 11.05.95.
XX
PO     A     C     G     T
01    15     4    80     1
02    25     6    66     3
03     1     3    93     3
04     2     4    90     4
05     1     0     7    92
06     0    84    10     6
07    80     5    14     1
08    11    47    11    31
09    12    29    49    10
XX
BF  T00117; CF1                          ; fruit fly
XX
BA  71 selected binding sequences
XX
CC  3 rounds of selection and amplification from random 20-mers; 
CC  figures are percentages
XX
RN  [1]
RA  Christianson A. M. K., King D. L., Hatzivassiliou E., Casas 
RA  J. E., Hallenbeck P. L., Nikodem V. M., Mitsialis S. A., Kafatos F. C.
RT  DNA binding and heteromerization of the Drosophila transcription 
RT  factor chorion factor 1/ultraspiracle
RL  Proc. Natl. Acad. Sci. USA 89:11503-11507 (1992).
XX
//
AC  M00112
XX
ID  I$CF1_02
XX
NA  CF1 / USP
XX
DT  ewi (created); 11.05.95.
DT  ewi (updated); 11.05.95.
XX
PO     A     C     G     T
01     3     3    94     0
02     5     0    95     0
03     0     0   100     0
04     0     0   100     0
05     0     0     0   100
06     0    94     3     3
07    95     0     5     0
08    11    68     5    16
09    13    24    55     8
XX
BF  T00117; CF1                          ; fruit fly
XX
BA  38 selected binding sequences
XX
CC  5 rounds of selection and amplification from random 20-mers; 
CC  figures are percentages
XX
RN  [1]
RA  Christianson A. M. K., King D. L., Hatzivassiliou E., Casas 
RA  J. E., Hallenbeck P. L., Nikodem V. M., Mitsialis S. A., Kafatos F. C.
RT  DNA binding and heteromerization of the Drosophila transcription 
RT  factor chorion factor 1/ultraspiracle
RL  Proc. Natl. Acad. Sci. USA 89:11503-11507 (1992).
XX
//
AC  M00113
XX
ID  V$CREB_02
XX
NA  CREB
XX
DT  ewi (created); 12.05.95.
DT  ewi (updated); 12.05.95.
XX
PO     A     C     G     T
01     2     5     4     5
02     1     3     6     6
03     2     2    12     0
04     5     1     7     3
05     0     0     0    16
06     0     0    15     1
07    16     0     0     0
08     0    15     1     0
09     0     0    15     1
10     1     5     0    10
11     4     7     3     2
12     5     6     3     2
XX
BA  16 selected binding sequences
XX
CC  5 cycles of selection and amplification from random 15-mers
XX
RN  [1]
RA  Paca-Uccaralertkun S., Zhao L.-J., Adya N., Cross J. V., Cullen 
RA  B. R., Boros I. M., Giam C.-Z.
RT  In vitro selection of DNA elements highly responsive to the 
RT  human T-cell lymphotropic virus type I transcriptional activator, Tax
RL  Mol. Cell. Biol. 14:456-462 (1994).
XX
//
AC  M00114
XX
ID  V$TAXCREB_01
XX
NA  Tax/CREB
XX
DT  ewi (created); 12.05.95.
DT  ewi (updated); 12.05.95.
XX
PO     A     C     G     T
01     2     2     9     4
02     2     2    10     3
03     0     2    14     1
04     0     2    15     0
05     1     0    16     0
06     1     2     4    10
07     0     0     0    17
08     0     0    14     3
09    17     0     0     0
10     0    17     0     0
11     0     0    17     0
12     1     7     2     7
13    11     5     1     0
14     4     3     5     5
15     9     2     3     3
XX
BF  T00163; CREB                         ; human
BF  T00164; CREB                         ; rat
BF  T00165; deltaCREB                    ; rat
BF  T00166; deltaCREB                    ; human
BF  T00793; Tax                          ; HTLV-I
BF  T00989; CREB                         ; mouse
BF  T01311; deltaCREB                    ; mouse
XX
BA  17 different selected binding sequences
XX
CC  5 cycles of selection and amplification from random 15-mers 
CC  using bacterially expressed Tax and CREB; only distinct sequences 
CC  were counted; consensus G
XX
RN  [1]
RA  Paca-Uccaralertkun S., Zhao L.-J., Adya N., Cross J. V., Cullen 
RA  B. R., Boros I. M., Giam C.-Z.
RT  In vitro selection of DNA elements highly responsive to the 
RT  human T-cell lymphotropic virus type I transcriptional activator, Tax
RL  Mol. Cell. Biol. 14:456-462 (1994).
XX
//
AC  M00115
XX
ID  V$TAXCREB_02
XX
NA  Tax/CREB
XX
DT  ewi (created); 12.05.95.
DT  ewi (updated); 12.05.95.
XX
PO     A     C     G     T
01     3     0     2     0
02     0     0     0     5
03     0     0     5     0
04     5     0     0     0
05     0     5     0     0
06     0     0     5     0
07     0     5     0     0
08     5     0     0     0
09     0     1     0     4
10     4     1     0     0
11     0     3     0     2
12     0     5     0     0
13     0     5     0     0
14     0     4     0     1
15     1     4     0     0
XX
BF  T00163; CREB                         ; human
BF  T00164; CREB                         ; rat
BF  T00165; deltaCREB                    ; rat
BF  T00166; deltaCREB                    ; human
BF  T00793; Tax                          ; HTLV-I
BF  T00989; CREB                         ; mouse
BF  T01311; deltaCREB                    ; mouse
XX
BA  5 different selected binding sequences
XX
CC  5 cycles of selection and amplification from random 15-mers 
CC  using bacterially expressed Tax and CREB; only distinct sequences 
CC  were counted; consensus C
XX
RN  [1]
RA  Paca-Uccaralertkun S., Zhao L.-J., Adya N., Cross J. V., Cullen 
RA  B. R., Boros I. M., Giam C.-Z.
RT  In vitro selection of DNA elements highly responsive to the 
RT  human T-cell lymphotropic virus type I transcriptional activator, Tax
RL  Mol. Cell. Biol. 14:456-462 (1994).
XX
//
AC  M00116
XX
ID  V$CEBPA_01
XX
NA  C/EBPalpha
XX
DT  ewi (created); 16.05.95.
DT  ewi (updated); 16.05.95.
XX
PO     A     C     G     T
01    16    10     7    10
02     9    10    11    13
03    23     5     8     7
04     0     0     0    43
05     0     0     1    42
06    14     2    25     2
07     4    28     8     3
08    13    11     8    11
09    15    13     2    13
10    29     9     2     3
11    30     6     5     2
12    11    11     9    12
13    10    17     7     9
14    16     8     7    12
XX
BF  T00104; C/EBP                        ; mouse
BF  T00105; C/EBP                        ; human
BF  T00107; C/EBP                        ; chick
BF  T00108; C/EBP                        ; rat
BF  T01388; C/EBP                        ; clawed frog
XX
BA  43 binding sites from 29 genes expressed in the liver but not 
BA  increasing during acute phase response
XX
CC  compiled sequences
XX
RN  [1]
RA  Johnson P. F., Williams S. C.
RT  CCAAT/enhancer binding (C/EBP) proteins
RL  Liver Gene Expression, F. Tronche and M. Yaniv (eds.), R. G. Landes Comp., Austin 1994 0:231-258 (1994).
XX
//
AC  M00117
XX
ID  V$CEBPB_02
XX
NA  C/EBPbeta
XX
DT  ewi (created); 16.05.95.
DT  ewi (updated); 16.05.95.
XX
PO     A     C     G     T
01     6     2     4     5
02     2     2     6     7
03     6     4     5     2
04     0     0     1    16
05     0     0     0    17
06     3     0    13     1
07     1    14     2     0
08     6     2     6     3
09     4     8     0     5
10    12     4     1     0
11    15     1     0     1
12     2     7     2     6
13     3     4     2     8
14     4     5     5     3
XX
BF  T00017; AGP/EBP                      ; mouse
BF  T00459; LAP                          ; rat
BF  T00581; NF-IL6                       ; human
XX
BA  17 binding sites from 14 genes expressed during acute phase response
XX
CC  compiled sequences
XX
RN  [1]
RA  Johnson P. F., Williams S. C.
RT  CCAAT/enhancer binding (C/EBP) proteins
RL  Liver Gene Expression, F. Tronche and M. Yaniv (eds.), R. G. Landes Comp., Austin 1994 0:231-258 (1994).
XX
//
AC  M00118
XX
ID  V$MYCMAX_01
XX
NA  c-Myc/Max
XX
DT  ewi (created); 18.05.95.
DT  ewi (updated); 18.05.95.
XX
PO     A     C     G     T
01    25    31    13    31
02    28     7    47    18
03    70     3    21     6
04    10    69    19     2
05     0   100     0     0
06   100     0     0     0
07     0   100     0     0
08     0     0   100     0
09     0     0     0   100
10     0     0   100     0
11     2    19    69    10
12     6    21     3    70
13    18    47     7    28
14    31    13    31    25
XX
BF  T00140; c-Myc                        ; human
BF  T00141; c-Myc                        ; chick
BF  T00142; c-Myc                        ; rat
BF  T00143; c-Myc                        ; mouse
BF  T00489; Max                          ; human
XX
BA  34 selected binding sequences for Myc/Max dimers
XX
CC  cumulative analysis of bound sequences after 7 and 8 rounds 
CC  of selection and amplification; only sequences with CACGTG core 
CC  were taken, the flanking regions were analysed as 68 NNNNCAG 
CC  half-sites and are mirrored for this matrix; figures are percentages
XX
RN  [1]
RA  Solomon D. L. C., Amati B., Land H.
RT  Distinct DNA binding preferences for the c-Myc/Max and Max/Max dimers
RL  Nucleic Acids Res. 21:5372-5376 (1993).
XX
//
AC  M00119
XX
ID  V$MAX_01
XX
NA  Max
XX
DT  ewi (created); 18.05.95.
DT  ewi (updated); 18.05.95.
XX
PO     A     C     G     T
01    38    16    26    20
02    42    10    33    15
03    62     3    30     5
04    30    32    15    23
05     0   100     0     0
06   100     0     0     0
07     0   100     0     0
08     0     0   100     0
09     0     0     0   100
10     0     0   100     0
11    23    15    32    30
12     5    30     3    62
13    15    33    10    42
14    20    26    16    38
XX
BF  T00489; Max                          ; human
XX
BA  37 selected binding sequences
XX
CC  cumulative analysis of bound sequences after 4 and 5 rounds 
CC  of selection and amplification; only sequences with CACGTG core 
CC  were taken, the flanking regions were analysed as 74 NNNNCAG 
CC  half-sites and are mirrored for this matrix; figures are percentages
XX
RN  [1]
RA  Solomon D. L. C., Amati B., Land H.
RT  Distinct DNA binding preferences for the c-Myc/Max and Max/Max dimers
RL  Nucleic Acids Res. 21:5372-5376 (1993).
XX
//
AC  M00120
XX
ID  I$DL_02
XX
NA  dl
XX
DT  ewi (created); 18.05.95.
DT  ewi (updated); 18.05.95.
XX
PO     A     C     G     T
01     3     4     0     5
02     0     3     9     0
03     5     2     5     0
04     0     0    12     0
05    12     0     0     0
06    11     0     1     0
07    12     0     0     0
08    11     0     0     1
09     3     4     1     4
10     0     8     1     3
11     4     5     3     0
XX
BF  T00196; dl                           ; fruit fly
XX
BA  12 binding sites from 2 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Thisse C., Perrin-Schmitt F., Stoetzel C., Thisse B.
RT  Sequence-specific transactivation of the Drosophila twist gene 
RT  by the dorsal gene product
RL  Cell 65:1191-1201 (1991).
XX
//
AC  M00121
XX
ID  V$USF_01
XX
NA  USF
XX
DT  ewi (created); 19.05.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    13     7    11     5
02     7     6    17    10
03    19     3    17     3
04     6    16     4    20
05     0    58     0     0
06    56     1     1     0
07     0    55     0     3
08     3     0    55     0
09     0     1     1    56
10     0     0    58     0
11    20     4    16     6
12     3    17     3    19
13    10    17     6     7
14     5    11     7    13
XX
BF  T00870; USF                          ; hamster
BF  T00872; USF                          ; chick
BF  T00874; USF                          ; human
BF  T00875; USF                          ; rat
BF  T00876; USF                          ; duck
BF  T00877; USF                          ; mouse
XX
BA  58 selected half-site sequences
XX
CC  2 cycles of binding selection and amplification in the presence 
CC  of Mg2+ ions using purified USF (HeLa cells); figures have been 
CC  mirrored to obtain the complete matrix
XX
RN  [1]
RA  Bendall A. J., Molloy P. L.
RT  Base preference for DNA binding by the bHLH-Zip protein USF: 
RT  effects of magnesiumchloride on specificity and comparison with 
RT  binding of Myc family members
RL  Nucleic Acids Res. 22:2801-2810 (1994).
XX
//
AC  M00122
XX
ID  V$USF_02
XX
NA  USF
XX
DT  ewi (created); 19.05.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    17     7     9    15
02    16     7    15    16
03    27     7    22     2
04    15    17    10    25
05     0    74     1     0
06    69     2     3     4
07     1    52    13    15
08    15    13    52     1
09     4     3     2    69
10     0     1    74     0
11    25    10    17    15
12     2    22     7    27
13    16    15     7    16
14    15     9     7    17
XX
BF  T00870; USF                          ; hamster
BF  T00872; USF                          ; chick
BF  T00874; USF                          ; human
BF  T00875; USF                          ; rat
BF  T00876; USF                          ; duck
BF  T00877; USF                          ; mouse
XX
BA  81 selected half-site sequences
XX
CC  2 cycles of binding selection and amplification in the absence 
CC  of Mg2+ ions using purified USF (HeLa cells); figures have been 
CC  mirrored to obtain the complete matrix
XX
RN  [1]
RA  Bendall A. J., Molloy P. L.
RT  Base preference for DNA binding by the bHLH-Zip protein USF: 
RT  effects of magnesiumchloride on specificity and comparison with 
RT  binding of Myc family members
RL  Nucleic Acids Res. 22:2801-2810 (1994).
XX
//
AC  M00123
XX
ID  V$MYCMAX_02
XX
NA  c-Myc/Max
XX
DT  ewi (created); 19.05.95.
DT  ewi (updated); 19.05.95.
XX
PO     A     C     G     T
01     7     7     5    10
02    21     3     1     4
03     3    11     9     6
04     0    29     0     0
05    29     0     0     0
06     0    27     0     2
07     9     0    20     0
08     2     4     0    23
09     0     0    27     2
10     7     3     6    13
11     4    12     7     6
12    14     4     0    10
XX
BF  T00140; c-Myc                        ; human
BF  T00141; c-Myc                        ; chick
BF  T00142; c-Myc                        ; rat
BF  T00143; c-Myc                        ; mouse
BF  T00489; Max                          ; human
XX
BA  29 selected binding sequences
XX
CC  3 rounds of SAAB using Myc/Max complexes immunoprecipitated 
CC  from K562 cells; 3 matrices have been combined
XX
RN  [1]
RA  Blackwell T. K., Huang J., Ma A., Kretzner L., Alt F. W., Eisenman 
RA  R. N., Weintraub H.
RT  Binding of Myc proteins to canonical and noncanonical DNA sequences
RL  Mol. Cell. Biol. 13:5216-5224 (1993).
XX
//
AC  M00124
XX
ID  V$PBX1_02
XX
NA  Pbx1b
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     8    16     5     4
02    16     9     2    10
03    10    20     4     5
04    36     1     3     0
05     0     1     0    39
06     0    40     0     0
07    37     3     0     0
08    40     0     0     0
09     0     0     0    40
10     0    40     0     0
11    36     2     1     1
12    34     1     1     4
13    16     4     6    14
14     9     7     6    17
15    11     6     2    18
XX
BA  40 selected binding sequences
XX
CC  6 rounds of selection from random 30-mers by binding to bacterially 
CC  expressed Pbx1b and amplification
XX
RN  [1]
RA  Lu Q., Wright D. D., Kamps M. P.
RT  Fusion with E2A converts the Pbx1 homeodomain protein into a 
RT  constitutive transcriptional activator in human leukemias carrying 
RT  the t(1;19) translocation
RL  Mol. Cell. Biol. 14:3938-3948 (1994).
XX
//
AC  M00125
XX
ID  F$MCM1_01
XX
NA  MCM1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     8     3     2    10
02     3     4     4    12
03     6     0     5    12
04     0    23     0     0
05     0    23     0     0
06     0    10     0    13
07    18     1     1     3
08    19     0     1     3
09    11     0     0    12
10     5    10     4     4
11     8     4     6     5
12     5     0    18     0
13     1     0    21     1
14     6     2     0    15
15    14     6     2     1
16    15     0     2     6
XX
BA  23 selected binding sequences
XX
CC  4 rounds of selection / amplification using in vitro transcribed/translated 
CC  MCM1[1-112]T
XX
RN  [1]
RA  Wynne J., Treisman R.
RT  SRF and MCM1 have related but distinct DNA binding specificities
RL  Nucleic Acids Res. 20:3297-3303 (1992).
XX
//
AC  M00126
XX
ID  V$GATA1_02
XX
NA  GATA-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     3     3     7     6
02     5     4     2     8
03     8     5     4     2
04     5     4     5     5
05     9     4     1     5
06     0     0    20     0
07    20     0     0     0
08     0     0     0    20
09    20     0     0     0
10     6     4     9     1
11     2     1    11     6
12     4     3    11     2
13     2     4    10     4
14     6     4     4     6
XX
BA  20 selected binding sequences
XX
CC  3 rounds to selection / amplification from random 26-mers binding 
CC  to murine GATA-1 in crude MEL extracts and using mGATA-1 antibodies; 
CC  only sites containing GATA consensus
XX
RN  [1]
RA  Whyatt D. J., deBoer E., Grosveld F.
RT  The two zinc finger-like domains of GATA-1 have different DNA 
RT  binding specificities
RL  EMBO J. 12:4993-5005 (1993).
XX
//
AC  M00127
XX
ID  V$GATA1_03
XX
NA  GATA-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     4     1     2     0
02     1     1     3     2
03     1     2     4     0
04     2     2     2     1
05     3     0     2     2
06     0     0    12     0
07    12     0     0     0
08     0     0     0    12
09    12     0     0     0
10     8     1     3     0
11     1     4     4     3
12     3     4     3     2
13     3     1     7     1
14     2     4     4     2
XX
BA  12 selected binding sequences
XX
CC  3 rounds to selection / amplification from random 26-mers binding 
CC  to murine GATA-1 in crude MEL extracts and using mGATA-1 antibodies; 
CC  only sequences with GATT consensus
XX
RN  [1]
RA  Whyatt D. J., deBoer E., Grosveld F.
RT  The two zinc finger-like domains of GATA-1 have different DNA 
RT  binding specificities
RL  EMBO J. 12:4993-5005 (1993).
XX
//
AC  M00128
XX
ID  V$GATA1_04
XX
NA  GATA-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01    15     1    11    10
02    10    11    12    15
03    11    25     9     3
04    25     2     2    19
05     0     0    48     0
06    48     0     0     0
07     0     0     0    48
08    48     0     0     0
09    27     1    16     4
10    11     8    24     5
11    12     8    18    10
12    15    13    16     4
13     8    13    14    12
XX
BA  48 putative in vivo GATA-1 sites
XX
CC  compiled genomic sequences
XX
RN  [1]
RA  Whyatt D. J., deBoer E., Grosveld F.
RT  The two zinc finger-like domains of GATA-1 have different DNA 
RT  binding specificities
RL  EMBO J. 12:4993-5005 (1993).
XX
//
AC  M00129
XX
ID  V$HFH1_01
XX
NA  HFH-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     2     3     3     6
02    10     1     2     1
03     4     2     0     8
04     2     0     0    12
05     0     0    14     0
06     0     0     0    14
07     0     0     0    14
08     0     0     0    14
09    13     0     1     0
10     0     1     3    10
11     5     0     2     7
12     1     2     0    11
XX
BA  14 selected binding sequences
XX
CC  4 cycles of SAAB using bacterially expressed HFH-1 and random 12-mers
XX
RN  [1]
RA  Overdier D. G., Porcella A., Costa R. H.
RT  The DNA-binding specificity of the hepatocyte nuclear factor 
RT  3/forkhead domain is influenced by amino acid residues adjacent 
RT  to the recognition helix
RL  Mol. Cell. Biol. 14:2755-2766 (1994).
XX
//
AC  M00130
XX
ID  V$HFH2_01
XX
NA  HFH-2
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     9     3    14     6
02    21     2     0     9
03    15     1     0    16
04     1     2     0    29
05    10     0    21     1
06     0     0     0    32
07     1     0     0    31
08     5     0     5    22
09    11     0    14     7
10     5     5     1    21
11     1     2     4    25
12     1    10     0    21
XX
BA  32 selected binding sequences
XX
CC  4 cycles of SAAB using bacterially expressed HFH-2 and random 
CC  12-mers; joint matrix for 3 groups of sequences
XX
RN  [1]
RA  Overdier D. G., Porcella A., Costa R. H.
RT  The DNA-binding specificity of the hepatocyte nuclear factor 
RT  3/forkhead domain is influenced by amino acid residues adjacent 
RT  to the recognition helix
RL  Mol. Cell. Biol. 14:2755-2766 (1994).
XX
//
AC  M00131
XX
ID  V$HNF3B_01
XX
NA  HNF-3beta
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     7     8     4     4
02     9     8     1     5
03     7     5     2     9
04     0     0     0    23
05    12     0    11     0
06     0     1     0    22
07     0     1     0    22
08     1     0     5    17
09     8     0    15     0
10     1    14     0     8
11     2     3     1    17
12     0     9     1    13
XX
BA  23 binding sites from 15 genes
XX
CC  compiled sequences
XX
XX
//
AC  M00132
XX
ID  V$HNF1_01
XX
NA  HNF-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     6     0    16     3
02     2     0    24     0
03     1     0     0    25
04     2     0     0    24
05    25     0     0     1
06    20     2     1     3
07     2     0     0    24
08     7     4     8     7
09    16     0     1     9
10     3     1     1    21
11     1     4     0    21
12    17     1     5     3
13     9    11     3     3
14     7    14     0     5
15    10     7     4     4
XX
BA  26 binding sites from 20 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Tronche F., Yaniv M.
RT  HNF1, a homeoprotein member of the hepatic transcription reulatory 
RT  network
RL  BioEssays 14:579-587 (1992).
XX
//
AC  M00133
XX
ID  V$TST1_01
XX
NA  Tst-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     1     1     3     1
02     2     1     2     1
03     0     1     3     2
04     1     1     4     0
05     5     0     0     1
06     4     0     0     2
07     0     0     0     6
08     2     0     0     4
09     4     1     0     1
10     2     2     2     0
11     4     1     1     0
12     2     2     2     0
13     0     1     1     4
14     1     0     2     2
15     1     2     2     1
XX
BA  6 binding sites in the P0 promoter
XX
CC  compiled sequences
XX
RN  [1]
RA  He X., Gerrero R., Simmons D. M., Park R. E., Lin C. R., Swanson 
RA  L. W., Rosenfeld M. G.
RT  Tst-1, a member of the POU domein gene family, binds the promoter 
RT  of the gene encoding the cell surface adhesion molecule po
RL  Mol. Cell. Biol. 11:1739-1744 (1991).
XX
//
AC  M00134
XX
ID  V$HNF4_01
XX
NA  HNF-4
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01    10     4     4     6
02     6     9     7     5
03    12     6     7     6
04    12     3    14     3
05     2     0    29     1
06     5     2    17     8
07     3     8    10    11
08     1    23     1     7
09    27     1     3     1
10    29     0     3     0
11    26     0     5     1
12     3     0    28     1
13     3     1    16    12
14     2     6     6    18
15     0    24     1     7
16    22     4     4     2
17     9     9     6     6
18     7     5    13     5
19     8     3     6     7
XX
BF  T00372; HNF-4                        ; rat
BF  T00373; HNF-4                        ; human
XX
BA  32 binding sites from 24 genes
XX
CC  compiled sequences
XX
XX
//
AC  M00135
XX
ID  V$OCT1_01
XX
NA  Oct-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     9     8     4     9
02     6     8    11    14
03    13    14    12     5
04    24    11     7     9
05    26     2     9    17
06     1     1     0    54
07    56     0     0     0
08     0     0     0    56
09     0     0    56     0
10     0    53     1     2
11    43     0     0    13
12    56     0     0     0
13    55     0     1     0
14     3     0     1    52
15    14     7     9    24
16     4    11     6    32
17     8    19    14     9
18    13    11    14    10
19    12     9    14    10
XX
BF  T00641; Oct-1                        ; human
BF  T00642; Oct-1                        ; clawed frog
BF  T00643; Oct-1                        ; rat
BF  T00644; Oct-1                        ; mouse
BF  T00959; Oct-1                        ; monkey
BF  T01031; Oct-1                        ; chick
BF  T01157; Oct-1                        ; gibbon ape
BF  T01466; Oct-1                        ; hamster
XX
BA  56 selected binding sequences
XX
CC  4 rounds of selection and amplification from random 24-mers 
CC  using the whole Oct-1 POU domain; protein was expressed in HeLa 
CC  cells using a vaccinia expression system
XX
RN  [1]
RA  Verrijzer C. P., Alkema M. J., van Weperen W. W., Van Leeuwen 
RA  H. C., Strating M. J. J., van der Vliet P. C.
RT  The DNA binding specificity of the bipartite POU domain and 
RT  its subdomains
RL  EMBO J. 11:4993-5003 (1992).
XX
//
AC  M00136
XX
ID  V$OCT1_02
XX
NA  Oct-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01    13     9     7     4
02    10     4     8    14
03     3     5    28     5
04    33     5     4     2
05    36     2     2     4
06     2     1     0    41
07    44     0     0     0
08     0     1     0    43
09     0     1    23    20
10     0    43     0     1
11    33     3     5     3
12    12    10     6    13
13    11     7    11    11
14    10    11     6    13
15    15     7     6    12
XX
BF  T00641; Oct-1                        ; human
BF  T00642; Oct-1                        ; clawed frog
BF  T00643; Oct-1                        ; rat
BF  T00644; Oct-1                        ; mouse
BF  T00959; Oct-1                        ; monkey
BF  T01031; Oct-1                        ; chick
BF  T01157; Oct-1                        ; gibbon ape
BF  T01466; Oct-1                        ; hamster
XX
BA  44 selected binding sequences
XX
CC  4 rounds of selection and amplification from random 24-mers 
CC  using the POU-specific domain of Oct-1; protein was expressed 
CC  in HeLa cells using a vaccinia expression system
XX
RN  [1]
RA  Verrijzer C. P., Alkema M. J., van Weperen W. W., Van Leeuwen 
RA  H. C., Strating M. J. J., van der Vliet P. C.
RT  The DNA binding specificity of the bipartite POU domain and 
RT  its subdomains
RL  EMBO J. 11:4993-5003 (1992).
XX
//
AC  M00137
XX
ID  V$OCT1_03
XX
NA  Oct-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     7    11    10    10
02     8     7    12    14
03     8    16    11     9
04    18     7    22     4
05     1     8     0    42
06    50     0     0     1
07    50     0     0     1
08     8     5     2    36
09     8    11    18    10
10    31     3     8     7
11     6     8    13    10
12    11     4    13     8
13    11     5     6    13
XX
BF  T00641; Oct-1                        ; human
BF  T00642; Oct-1                        ; clawed frog
BF  T00643; Oct-1                        ; rat
BF  T00644; Oct-1                        ; mouse
BF  T00959; Oct-1                        ; monkey
BF  T01031; Oct-1                        ; chick
BF  T01157; Oct-1                        ; gibbon ape
BF  T01466; Oct-1                        ; hamster
XX
BA  51 selected binding sequences
XX
CC  4 rounds of selection and amplification from random 24-mers 
CC  using the isolated homeodomain domain of Oct-1; protein was 
CC  expressed in HeLa cells using a vaccinia expression system
XX
RN  [1]
RA  Verrijzer C. P., Alkema M. J., van Weperen W. W., Van Leeuwen 
RA  H. C., Strating M. J. J., van der Vliet P. C.
RT  The DNA binding specificity of the bipartite POU domain and 
RT  its subdomains
RL  EMBO J. 11:4993-5003 (1992).
XX
//
AC  M00138
XX
ID  V$OCT1_04
XX
NA  Oct-1
XX
DT  hiwi (created); 22.05.95.
DT  ewi (updated); 22.05.95.
XX
PO     A     C     G     T
01     6     2     6     6
02     6     6     2     7
03    12     1     6     6
04     6     6     6    13
05    12     2    12     7
06    15     7     7    10
07    11     6     9    16
08    11     7     3    23
09    41     3     2     1
10     0     4     4    39
11     3     1    34     9
12     6    27     4    10
13    36     3     0     8
14    30     0     4    13
15    44     1     2     0
16    10     1     3    29
17    11     7     6    18
18    13     9     4    12
19    16     5     5    10
20    13     3     4    11
21     9     8     4     6
22     4     7    11     4
23    12     1     3     6
XX
BF  T00641; Oct-1                        ; human
BF  T00642; Oct-1                        ; clawed frog
BF  T00643; Oct-1                        ; rat
BF  T00644; Oct-1                        ; mouse
BF  T00959; Oct-1                        ; monkey
BF  T01031; Oct-1                        ; chick
BF  T01157; Oct-1                        ; gibbon ape
BF  T01466; Oct-1                        ; hamster
XX
BA  49 selected binding sequences
XX
CC  3 rounds of selection and amplification using the HeLa fractionated 
CC  extract and Oct-1-specific antibodies
XX
RN  [1]
RA  Bendall A. J., Sturm R. A., Danoy P. A. C., Molloy P. L.
RT  Broad binding-site speciificity and affinity properties of octamer 
RT  1 and brain octamer-binding proteins
RL  Eur. J. Biochem. 217:799-811 (1993).
XX
//
AC  M00139
XX
ID  V$AHR_01
XX
NA  AhR
XX
DT  ewi (created); 26.05.95.
DT  ewi (updated); 26.05.95.
XX
PO     A     C     G     T
01     0     6     2     1
02     0     6     0     3
03     0     5     1     3
04     0     7     2     0
05     2     3     3     1
06     4     0     5     0
07     3     1     4     1
08     0     5     4     0
09     0     0     0     9
10     3     2     1     3
11     0     0     9     0
12     0     9     0     0
13     0     0     9     0
14     0     0     0     9
15     0     0     9     0
16     6     1     1     1
17     1     3     5     0
18     6     0     0     3
XX
BF  T00018; AhR                          ; mouse
BF  T00019; AhR                          ; rat
BF  T00194; dioxin receptor              ; mouse
BF  T00195; dioxin receptor              ; rat
XX
BA  9 binding sites in rat and mouse cytochrome P450 genes
XX
CC  sequences compiled by TRANSFAC
XX
RN  [1]
RA  Denison M. S., Fisher J. M., Whitlock J. P.
RT  Protein-DNA Interactions at Recognition Sites for the Dioxin-Ah 
RT  Receptor Complex
RL  J. Biol. Chem. 264:16478-16482 (1989).
RN  [2]
RA  Neuhold L. A., Shirayoshi Y., Ozato K., Jones J. E., Nebert D. W.
RT  Regulation of Mouse CYP1A1 Gene Expression by Dioxin: Requirement 
RT  of Two cis-Acting Elements during Induction
RL  Mol. Cell. Biol. 9:2378-2386 (1989).
RN  [3]
RA  Hapgood J., Cuthill S., Denis M., Poellinger L., Gustafsson J.-A.
RT  Specific protein-DNA interactions at a xenobiotic-responsive 
RT  element: Copurification of dioxin receptor and DNA-binding affinity
RL  Proc. Natl. Acad. Sci. USA 86:60-64 (1989).
RN  [4]
RA  Hapgood J., Cuthill S., Soederkvist P., Wilhelmsson A., Pongratz 
RA  I., Tukey R. H., Johnson E. F., Gustafsson J.-A., Poellinger L.
RT  Liver cells contain constitutive DNase I-hypersensitive sites 
RT  at the xenobiotic response elements 1 and 2 (XRE1 and -2) of 
RT  the rat cytochrome P-450IA1 gene and a constitutive, nuclear 
RT  XRE-binding factor that is distinct from the dioxin receptor
RL  Mol. Cell. Biol. 11:4314-4323 (1991).
RN  [5]
RA  Hoffman E. C., Reyes H., Chu F.-F., Sander F., Conley L. H., 
RA  Brooks B. A., Hankinson O.
RT  Cloning of a factor required for activity of the Ah (dioxin) receptor
RL  Science 252:954-958 (1991).
XX
//
AC  M00140
XX
ID  I$BCD_01
XX
NA  Bcd
XX
DT  ewi (created); 26.05.95.
DT  ewi (updated); 26.05.95.
XX
PO     A     C     G     T
01     0     4     7     1
02     2     1     8     1
03     0     0    12     0
04    12     0     0     0
05     0     0     0    12
06     0     0     0    12
07    12     0     0     0
08     6     1     2     3
XX
BF  T00063; Bcd                          ; fruit fly
XX
BA  12 binding sites from 3 genes
XX
CC  sequences compiled in TRANSFAC
XX
XX
//
AC  M00141
XX
ID  V$LYF1_01
XX
NA  Lyf-1
XX
DT  ewi (created); 29.05.95.
DT  ewi (updated); 29.05.95.
XX
PO     A     C     G     T
01     0     1     2     8
02     0     3     0     8
03     1     1     0     9
04     2     0     9     0
05     1     0    10     0
06     0     1    10     0
07    10     0     1     0
08     3     0     7     1
09     5     0     6     0
XX
BF  T00479; LyF-1                        ; mouse
XX
BA  11 binding sites from 5 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Lo K., Landau N. R., Smale S. T.
RT  LyF-1, a transcriptional regulator that interacts with a novel 
RT  class of promoters for lymphocytes-specific genes
RL  Mol. Cell. Biol. 11:5229-5243 (1991).
XX
//
AC  M00142
XX
ID  F$NIT2_01
XX
NA  NIT2
XX
DT  ewi (created); 29.05.95.
DT  ewi (updated); 29.05.95.
XX
PO     A     C     G     T
01     0     0     0    16
02    16     0     0     0
03     0     0     0    16
04     0    16     0     0
05     4     0     3     9
06     7     6     0     3
XX
BA  16 binding sites from 2 genes of Neurospora crassa and Aspergillus nidulans
XX
CC  compiled sequences
XX
RN  [1]
RA  Fu Y.-H., Marzluf G. A.
RT  nit-2, the major positive-acting nitrogen regulatory gene of 
RT  Neurospora crassa, encodes a sequence-specific DNA-binding protein
RL  Proc. Natl. Acad. Sci. USA 87:5331-5335 (1990).
XX
//
AC  M00143
XX
ID  V$PAX5_01
XX
NA  BSAP
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     0     2     2     3
02     1     5     0     1
03     1     2     3     1
04     3     1     1     2
05     2     1     3     1
06     3     0     4     0
07     1     3     2     1
08     0     1     4     2
09     0     7     0     0
10     7     0     0     0
11     2     2     2     1
12     0     2     2     3
13     0     1     6     0
14     3     1     1     2
15     2     0     1     4
16     0     0     7     0
17     2     3     1     1
18     3     0     4     0
19     1     0     2     4
20     4     1     2     0
21     1     1     5     0
22     2     5     0     0
23     1     3     3     0
24     2     0     4     1
25     1     4     2     0
26     2     3     0     2
27     1     3     2     1
28     0     3     2     2
XX
BF  T00070; BSAP                         ; human
BF  T01201; BSAP                         ; mouse
XX
BA  7 binding sites from 7 genes
XX
CC  compiled class I sequences which are bound by the full-length 
CC  protein, but not by the truncated BSAP(1-107)
XX
RN  [1]
RA  Czerny T., Schaffner G., Busslinger M.
RT  DNA sequence recognition by Pax proteins: bipartite structure 
RT  of the paired domain and its binding site
RL  Genes Dev. 7:2048-2061 (1993).
XX
//
AC  M00144
XX
ID  V$PAX5_02
XX
NA  BSAP
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     2     1     2     0
02     3     0     2     0
03     2     2     0     1
04     1     2     2     0
05     2     0     1     2
06     1     0     4     0
07     3     0     1     1
08     1     1     1     2
09     2     0     1     2
10     0     2     1     2
11     0     3     1     1
12     0     1     0     4
13     1     1     2     1
14     3     0     2     0
15     4     0     1     0
16     0     0     5     0
17     0     5     0     0
18     0     0     5     0
19     0     0     2     3
20     2     0     3     0
21     4     0     0     1
22     0     5     0     0
23     1     2     2     0
24     3     0     2     0
25     0     2     0     3
26     2     1     1     1
27     1     2     2     0
28     2     2     0     1
XX
BF  T00070; BSAP                         ; human
BF  T01201; BSAP                         ; mouse
XX
BA  5 binding sites from 5 genes
XX
CC  compiled class II sequences which are bound by the full-length 
CC  protein as well as by the truncated BSAP(1-107)
XX
RN  [1]
RA  Czerny T., Schaffner G., Busslinger M.
RT  DNA sequence recognition by Pax proteins: bipartite structure 
RT  of the paired domain and its binding site
RL  Genes Dev. 7:2048-2061 (1993).
XX
//
AC  M00145
XX
ID  V$BRN2_01
XX
NA  Brn-2
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     2     3     4     3
02     2     4     2     4
03     1     9     1     1
04    11     0     0     1
05     1     0     0    11
06     1     3     3     3
07     1     5     3     1
08     2     0     2     1
09     6     0     0     6
10    12     0     0     0
11    12     0     0     0
12     1     0     0    11
13     4     2     5     1
14     6     4     1     1
15     5     0     5     2
16     2     5     1     4
XX
BF  T00630; N-Oct-3                      ; human
BF  T01524; Brn-2                        ; rat
XX
BA  12 binding sites from 9 vertebral and insect genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Li P., He X., Gerrero M. R., Mok M., Aggarwal A., Rosenfeld M. G.
RT  Spacing and orientation of bipartite DNA-binding motifs as potential 
RT  functional determinants for POU domain factors
RL  Genes Dev. 7:2483-2496 (1993).
XX
//
AC  M00146
XX
ID  V$HSF1_01
XX
NA  HSF1
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    24     4    12     5
02     0     0    45     0
03    38     1     2     4
04    36     1     2     6
05     7    14     9    15
06    13     2    21     8
07     6     4     6    29
08     5     4     5    31
09     0    45     0     0
10     6     7    21    11
XX
BF  T01042; HSF1                         ; human
BF  T01044; HSF1                         ; chick
BF  T01525; HSF1                         ; mouse
XX
BA  45 selected binding sequences
XX
CC  5 rounds of selection from random 27-mers
XX
RN  [1]
RA  Kroeger P. E., Morimoto R. I.
RT  Selection of new HSF1 and HSF2 DNA-binding sites reveals differences 
RT  in trimer cooperativity
RL  Mol. Cell. Biol. 14:7592-7603 (1994).
XX
//
AC  M00147
XX
ID  V$HSF2_01
XX
NA  HSF2
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     9     6     8     3
02     0     0    27     0
03    24     1     2     0
04    20     1     2     4
05     4     6     7    10
06     8     7     8     4
07     8     2     2    15
08     4     0     2    20
09     0    27     0     0
10     2     4    12     9
XX
BF  T00972; HSF2                         ; mouse
BF  T01043; HSF2                         ; human
BF  T01045; HSF2                         ; chick
XX
BA  27 selected binding sequences
XX
CC  5 rounds of selection from random 27-mers
XX
RN  [1]
RA  Kroeger P. E., Morimoto R. I.
RT  Selection of new HSF1 and HSF2 DNA-binding sites reveals differences 
RT  in trimer cooperativity
RL  Mol. Cell. Biol. 14:7592-7603 (1994).
XX
//
AC  M00148
XX
ID  V$SRY_01
XX
NA  SRY
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    19     0     0     4
02    22     0     0     1
03    16     0     1     6
04     0    17     6     0
05    14     0     1     8
06    13     5     2     3
07    12     8     2     1
XX
BF  T00996; SRY                          ; mouse
BF  T00997; SRY                          ; human
XX
BA  23 selected binding sequences
XX
CC  5 rounds of selection from random dekamers
XX
RN  [1]
RA  Pontiggia A., Rimini R., Harley V. R., Goodfellow P. N., Lovell-Badge 
RA  R., Bianchi M. E.
RT  Sex-reversing mutations affect the architecture of SRY--DNA complexes
RL  EMBO J. 13:6115-6124 (1994).
XX
//
AC  M00149
XX
ID  P$SBF1_01
XX
NA  SBF-1
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     0     1     2     3
02     2     1     0     3
03     2     0     3     1
04     1     1     0     4
05     1     1     3     1
06     1     1     4     0
07     0     0     0     6
08     0     0     0     6
09     6     0     0     0
10     5     1     0     0
11     3     0     0     3
12     4     0     0     2
13     3     0     0     3
14     1     1     2     2
XX
BF  T00739; SBF-1                        ; french bean
XX
BA  6 binding sites from 2 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Lawton M. A., Dean S. M., Dron M., Kooter J. M., Kragh D. M., 
RA  Harrison M. J., Yu L., Tanguay L., Dixon R. A., Lamb C. J.
RT  Silencer region of a chalcone synthase promoter contains multiple 
RT  binding sites for a factor, SBF-1, closely related to GT-1
RL  Plant Mol. Biol. 16:235-249 (1991).
XX
//
AC  M00150
XX
ID  V$BRACH_01
XX
NA  Brachyury
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    15    17     3     5
02     5     3    15    17
03    15    14     0    11
04     5    12    16     7
05     1     2     0    37
06     2    19    19     0
07    30     0     7     3
08     0    40     0     0
09    38     0     2     0
10     2    34     2     2
11     2    28     8     2
12     1     1     0    38
13    40     0     0     0
14     0     0    40     0
15     0     0    40     0
16     0     0     0    40
17     0     0    40     0
18     0     2     0    38
19     1     7    28     4
20    40     0     0     0
21    31     5     0     4
22    33     0     3     4
23     5     5     1    29
24     1     5     8    26
XX
BF  T01526; Brachyury                    ; mouse
XX
BA  40 selected binding sequences
XX
CC  4 rounds of selection from random 26-mers by binding to in vitro 
CC  transcribed and translated factor
XX
RN  [1]
RA  Kispert A., Herrmann B. G.
RT  The Brachyury gene encodes a novel DNA binding protein
RL  EMBO J. 12:3211-3220 (1993).
XX
//
AC  M00151
XX
ID  P$AG_01
XX
NA  AG
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    21    20     6    19
02     9     3     3    51
03    10     0     1    55
04    29     8     8    21
05     0    66     0     0
06     0    65     0     1
07    31     3     6    26
08    47     2     0    17
09    52     0     1    13
10    25     0     1    40
11    17    15    11    23
12    19     8    20    19
13     7     0    57     2
14     2     0    54    10
15    22    17     5    22
16    45     4     5    12
17    40     6     9    11
18    15    10    16    25
XX
BF  T01007; AG                           ; mouse-ear cress
XX
BA  66 selected binding sequences
XX
CC  5 rounds of selection from random 26-mers bound to bacterially expressed protein
XX
RN  [1]
RA  Huang H., Mizukami Y., Hu Y., Ma H.
RT  Isolation and characterization of the binding sequences for 
RT  the product of the Arabidopsis floral homeotic gene AGAMOUS
RL  Nucleic Acids Res. 21:4769-4776 (1993).
XX
//
AC  M00152
XX
ID  V$SRF_01
XX
NA  SRF
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    28     1     2     2
02     1     0     0    32
03     1     0    31     1
04     7    25     0     1
05     0    33     0     0
06     0    33     0     0
07    23     0     0    10
08     2     0     0    31
09    33     0     0     0
10     0     0     0    33
11    31     0     0     2
12    10     0     0    23
13     0     0    33     0
14     0     0    33     0
15    12     4     3    14
16    13     9     8     3
17    11     6     7     9
18     1     4     8    20
XX
BA  33 selected binding sequences
XX
CC  4 rounds of selection from random 26-mers using overexpressed 
CC  SRF present in crude 3T3 cell extracts and specific antibodies 
CC  for immunoprecipitation
XX
RN  [1]
RA  Pollock R., Treisman R.
RT  A sensitive method for the determination of protein-DNA binding 
RT  specificities
RL  Nucleic Acids Res. 18:6197-6204 (1990).
XX
//
AC  M00154
XX
ID  F$STRE_01
XX
NA  STRE
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     3     3     1    10
02     6     7     1     3
03    17     0     0     0
04     0     0    17     0
05     0     0    17     0
06     0     0    17     0
07     0     0    17     0
08     4     5     7     1
XX
BA  17 stress-response element-related sequences from 7 stress-induced yeast genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Schller C., Brewster J. L., Alexander M. R., Gustin M. C., Ruis H.
RT  The HOG pathway controls osmotic regulation of transcription 
RT  via the stress response element (STRE) of the Saccharomyces 
RT  cerevisiae CTT1 gene
RL  EMBO J. 13:4382-4389 (1994).
XX
//
AC  M00155
XX
ID  V$ARP1_01
XX
NA  ARP-1
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     0     1     0     6
02     0     1     6     0
03     6     1     0     0
04     1     0     1     0
05     0     5     1     1
06     0     6     0     1
07     0     4     0     3
08     1     1     0     5
09     0     0     0     7
10     0     0     7     0
11     4     0     1     0
12     2     3     1     0
13     2     5     0     0
14     0     5     0     2
15     0     4     1     2
16     3     0     0     4
XX
BF  T00045; ARP-1                        ; human
XX
BA  7 binding sites from 6 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Ladias J. A. A., Karathanasis S. K.
RT  Regulation of the apolipoprotein A1 gene by ARP-1, a novel member 
RT  of the steroid receptor superfamily
RL  Science 251:561-565 (1991).
XX
//
AC  M00156
XX
ID  V$RORA1_01
XX
NA  RORalpha1
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    10     2     7     6
02     9     3     3    10
03    15     1     2     7
04     9     1     0    15
05     6    12     4     3
06    11     2     5     7
07    21     0     4     0
08     0     0    25     0
09     0     0    25     0
10     0     0     0    25
11     0    25     0     0
12    25     0     0     0
13     7     6     2    10
XX
BF  T01527; RORalpha1                    ; human
XX
BA  25 selected binding sequences
XX
CC  4 rounds of selection from random 30-mers by binding to in vitro-synthesized 
CC  factor
XX
RN  [1]
RA  Gigure V., Tini M., Flock G., Ong E., Evans R. M., Otulakowski G.
RT  Isoform-specific amino-terminal domains dictate DNA-binding 
RT  properties of RORalpha, a novel family of orphan hormone nuclear 
RT  receptors
RL  Genes Dev. 8:538-553 (1994).
XX
//
AC  M00157
XX
ID  V$RORA2_01
XX
NA  RORalpha2
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01    17     2     7    10
02    15     0     4    17
03    36     0     0     0
04    22     0     0    14
05     2    12    13     9
06     0     0     0    36
07    28     0     8     0
08     0     0    36     0
09     0     0    36     0
10     0     0     0    36
11     0    36     0     0
12    36     0     0     0
13    14     7    10     5
XX
BF  T01528; RORalpha2                    ; human
XX
BA  36 selected binding sequences
XX
CC  6 rounds of selection from random 30-mers by binding to in vitro-synthesized 
CC  factor
XX
RN  [1]
RA  Gigure V., Tini M., Flock G., Ong E., Evans R. M., Otulakowski G.
RT  Isoform-specific amino-terminal domains dictate DNA-binding 
RT  properties of RORalpha, a novel family of orphan hormone nuclear 
RT  receptors
RL  Genes Dev. 8:538-553 (1994).
XX
//
AC  M00158
XX
ID  V$COUP_01
XX
NA  COUP-TF / HNF-4
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     0     0     2    11
02     1     0    12     0
03    12     0     1     0
04     6     7     0     0
05     0    13     0     0
06     0     3     0    10
07     0     2     0    11
08     1     0     0    12
09     2     0    11     0
10     6     4     3     0
11     6     5     1     1
12     1    10     1     1
13     3     6     0     4
14     0     3     3     7
XX
BF  T00147; COUP                         ; rat
BF  T00148; COUP                         ; chick
BF  T00149; COUP                         ; human
BF  T00372; HNF-4                        ; rat
BF  T00373; HNF-4                        ; human
BF  T00994; COUP-TF                      ; mouse
XX
BA  13 genomic binding sites for COUP-TF and HNF-4
XX
CC  compiled sequences
XX
RN  [1]
RA  Kimura A., Nishiyori A., Murakami T., tsukamoto T., Hata S., 
RA  Osumi T., Okamura R., Mori M., Takiguchi M.
RT  Chicken ovalbumin upstream promoter-transcription factor (COUP-TF) 
RT  represses transcription from the promoter of the gene for ornithine 
RT  transcarbamylase in a manner antagonistic to hepatocyte nuclear 
RT  factor-4 (HNF-4)
RL  J. Biol. Chem. 268:11125-11133 (1993).
XX
//
AC  M00159
XX
ID  V$CEBP_01
XX
NA  C/EBP
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     5     3     4    10
02     7     6     7     2
03     5     0     3    14
04     3     0     8    11
05     2     0     2    18
06     0     0    22     0
07     2     5    12     3
08     8     1     2    11
09    10     2     4     6
10    16     0     0     6
11     6     5     7     4
12     4     4     7     7
13     4     7     4     7
XX
BF  T00104; C/EBP                        ; mouse
BF  T00105; C/EBP                        ; human
BF  T00107; C/EBP                        ; chick
BF  T00108; C/EBP                        ; rat
BF  T01388; C/EBP                        ; clawed frog
XX
BA  22 binding sites from 9 viral and cellular genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Grange T., Roux J., Rigaud G., Pictet R.
RT  Cell-type specific activity of two glucocorticoid responsive 
RT  units of rat tyrosine aminotransferase gene is associated with 
RT  multiple binding sites for C/EBP and a novel liver-specific 
RT  nuclear factor
RL  Nucleic Acids Res. 19:131-139 (1991).
XX
//
AC  M00160
XX
ID  V$SRY_02
XX
NA  SRY
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     6     6    10     7
02    10     4     3    12
03    15     1     2    11
04    21     2     1     5
05    25     0     0     4
06     0    29     0     0
07    28     0     0     1
08    27     0     0     2
09    10     0     1    18
10    16     3     5     5
11     7     6    13     3
12    11     2    10     6
XX
BF  T00996; SRY                          ; mouse
BF  T00997; SRY                          ; human
XX
BA  29 selected binding sequences
XX
CC  9 rounds of selection from random 26-mers by binding to bacterially 
CC  expressed factor
XX
RN  [1]
RA  Harley V. R., Lovell-Badge R., Goodfellow P. N.
RT  Definition of a consensus DNA binding site for SRY
RL  Nucleic Acids Res. 22:1500-1501 (1994).
XX
//
AC  M00161
XX
ID  V$OCT1_05
XX
NA  Oct-1
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 14.06.95.
XX
PO     A     C     G     T
01     3     3     1     0
02     0     0     3     4
03     3     2     2     0
04     6     1     0     0
05     0     0     0     7
06     0     0     0     7
07     2     0     0     5
08     0     1     5     1
09     0     7     0     0
10     7     0     0     0
11     0     0     0     7
12     5     0     1     1
13     1     2     0     4
14     0     2     1     4
XX
BF  T00641; Oct-1                        ; human
BF  T00642; Oct-1                        ; clawed frog
BF  T00643; Oct-1                        ; rat
BF  T00644; Oct-1                        ; mouse
BF  T00959; Oct-1                        ; monkey
BF  T01031; Oct-1                        ; chick
BF  T01157; Oct-1                        ; gibbon ape
BF  T01466; Oct-1                        ; hamster
XX
BA  7 binding sites from 6 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Groenen M. A. M., Dijkhof R. J. M., van der Poel J. J., van 
RA  Diggelen R., Verstege E.
RT  Multiple octamer binding sites in the promoter region of the 
RT  bovine alphas2-casein gene
RL  Nucleic Acids Res. 20:4311-4318 (1992).
XX
//
AC  M00162
XX
ID  V$OCT1_06
XX
NA  Oct-1
XX
DT  hiwi (created); 08.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01     1     4     1     0
02     3     0     1     2
03     2     1     1     2
04     4     1     0     1
05     3     1     0     2
06     0     0     0     6
07     0     0     3     3
08     3     0     1     2
09     1     3     2     0
10     6     0     0     0
11     0     0     0     6
12     2     0     3     1
13     0     3     0     3
14     2     1     1     2
XX
BF  T00641; Oct-1                        ; human
BF  T00642; Oct-1                        ; clawed frog
BF  T00643; Oct-1                        ; rat
BF  T00644; Oct-1                        ; mouse
BF  T00959; Oct-1                        ; monkey
BF  T01031; Oct-1                        ; chick
BF  T01157; Oct-1                        ; gibbon ape
BF  T01466; Oct-1                        ; hamster
XX
BA  6 binding sites of TAATGARAT type from 3 genes
XX
CC  compiled sequences
XX
RN  [1]
RA  Groenen M. A. M., Dijkhof R. J. M., van der Poel J. J., van 
RA  Diggelen R., Verstege E.
RT  Multiple octamer binding sites in the promoter region of the 
RT  bovine alphas2-casein gene
RL  Nucleic Acids Res. 20:4311-4318 (1992).
XX
//
AC  M00163
XX
ID  I$HSF_02
XX
NA  HSF (Drosophila)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    31    14     4     1
02     0     0    50     0
03    48     2     0     0
04    43     1     5     1
05    23     1    14    12
06    31    14     4     1
07     0     0    50     0
08    48     2     0     0
09    43     1     5     1
10    23     1    14    12
11    31    14     4     1
12     0     0    50     0
13    48     2     0     0
14    43     1     5     1
15    23     1    14    12
XX
BF  T00386; HSTF                         ; fruit fly
XX
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00028) in NGAANNGAANNGAAN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00164
XX
ID  I$HSF_03
XX
NA  HSF (Drosophila)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    31    14     4     1
02     0     0    50     0
03    48     2     0     0
04    43     1     5     1
05    23     1    14    12
06    31    14     4     1
07     0     0    50     0
08    48     2     0     0
09    43     1     5     1
10    23     1    14    12
11    12    14     1    23
12     1     5     1    43
13     0     0     2    48
14     0    50     0     0
15     1     4    14    31
XX
BF  T00386; HSTF                         ; fruit fly
XX
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00028) in NGAANNGAANNTTCN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00165
XX
ID  I$HSF_04
XX
NA  HSF (Drosophila)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    31    14     4     1
02     0     0    50     0
03    48     2     0     0
04    43     1     5     1
05    23     1    14    12
06    12    14     1    23
07     1     5     1    43
08     0     0     2    48
09     0    50     0     0
10     1     4    14    31
11    31    14     4     1
12     0     0    50     0
13    48     2     0     0
14    43     1     5     1
15    23     1    14    12
XX
BF  T00386; HSTF                         ; fruit fly
XX
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00028) in NGAANNTTCNNGAAN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00166
XX
ID  I$HSF_05
XX
NA  HSF (Drosophila)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    12    14     1    23
02     1     5     1    43
03     0     0     2    48
04     0    50     0     0
05     1     4    14    31
06    31    14     4     1
07     0     0    50     0
08    48     2     0     0
09    43     1     5     1
10    23     1    14    12
11    31    14     4     1
12     0     0    50     0
13    48     2     0     0
14    43     1     5     1
15    23     1    14    12
XX
BF  T00386; HSTF                         ; fruit fly
XX
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00028) in NTTCNNGAANNGAAN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00167
XX
ID  F$HSF_02
XX
NA  HSF (yeast)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    28     6    12     4
02     0     0    48     2
03    46     0     2     2
04    46     0     2     2
05    12    19     8    11
06    28     6    12     4
07     0     0    48     2
08    46     0     2     2
09    46     0     2     2
10    12    19     8    11
11    28     6    12     4
12     0     0    48     2
13    46     0     2     2
14    46     0     2     2
15    12    19     8    11
XX
BF  T00385; HSTF                         ; yeast
XX
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00029) in NGAANNGAANNGAAN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00168
XX
ID  F$HSF_03
XX
NA  HSF (yeast)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    28     6    12     4
02     0     0    48     2
03    46     0     2     2
04    46     0     2     2
05    12    19     8    11
06    28     6    12     4
07     0     0    48     2
08    46     0     2     2
09    46     0     2     2
10    12    19     8    11
11    11     8    19    12
12     2     2     0    46
13     2     2     0    46
14     2    48     0     0
15     4    12     6    28
XX
BF  T00385; HSTF                         ; yeast
XX
BA  50 functional genomic HSEs
XX
CC  50 functional genomic HSEstriple repeat of the 5-bp unit (M00029) 
CC  in NGAANNGAANNTTCN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00169
XX
ID  F$HSF_04
XX
NA  HSF (yeast)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    28     6    12     4
02     0     0    48     2
03    46     0     2     2
04    46     0     2     2
05    12    19     8    11
06    11     8    19    12
07     2     2     0    46
08     2     2     0    46
09     2    48     0     0
10     4    12     6    28
11    28     6    12     4
12     0     0    48     2
13    46     0     2     2
14    46     0     2     2
15    12    19     8    11
XX
BF  T00385; HSTF                         ; yeast
XX
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00029) in NGAANNTTCNNGAAN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
XX
//
AC  M00170
XX
ID  F$HSF_05
XX
NA  HSF (yeast)
XX
DT  ewi (created); 22.06.95.
DT  ewi (updated); 22.06.95.
XX
PO     A     C     G     T
01    11     8    19    12
02     2     2     0    46
03     2     2     0    46
04     2    48     0     0
05     4    12     6    28
06    28     6    12     4
07     0     0    48     2
08    46     0     2     2
09    46     0     2     2
10    12    19     8    11
11    28     6    12     4
12     0     0    48     2
13    46     0     2     2
14    46     0     2     2
15    12    19     8    11
XX
BF  T00385; HSTF                         ; yeast
BA  50 functional genomic HSEs
XX
CC  triple repeat of the 5-bp unit (M00028) in NTTCNNGAANNGAAN orientation
XX
RN  [1]
RA  Fernandes M., Xiao H., Lis J. T.
RT  Fine structure analyses of the Drosophila and Saccharomyces 
RT  heat shock factor-heat shock element interactions
RL  Nucleic Acids Res. 22:167-173 (1994).
//