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BLASTN 2.2.26+
Reference: Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb
Miller (2000), "A greedy algorithm for aligning DNA sequences", J
Comput Biol 2000; 7(1-2):203-14.
Database: minirefseq_mrna
23 sequences; 67,750 total letters
Query= random_s00
Length=128
***** No hits found *****
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 7616765
Query= gi|356995852:1-490 Mus musculus POU domain, class 5, transcription
factor 1 (Pou5f1), transcript variant 1, mRNA
Length=490
Score E
Sequences producing significant alignments: (Bits) Value
gi|356995852|ref|NM_013633.3| Mus musculus POU domain, class 5,... 905 0.0
gi|377833530|ref|XR_141831.1| PREDICTED: Mus musculus predicted... 900 0.0
gi|260269517|ref|NM_001009178.2| Rattus norvegicus POU class 5 ... 734 0.0
gi|295390144|ref|NR_033594.1| Mus musculus predicted gene 5712 ... 446 2e-127
gi|354487499|ref|XM_003505863.1| PREDICTED: Cricetulus griseus ... 433 1e-123
> gi|356995852|ref|NM_013633.3| Mus musculus POU domain, class
5, transcription factor 1 (Pou5f1), transcript variant 1, mRNA
Length=1353
Score = 905 bits (490), Expect = 0.0
Identities = 490/490 (100%), Gaps = 0/490 (0%)
Strand=Plus/Plus
Query 1 GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCA 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1 GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCA 60
Query 61 CCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGG 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 61 CCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGG 120
Query 121 GTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCC 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 121 GTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCC 180
Query 181 AAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCAT 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 181 AAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCAT 240
Query 241 GTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGG 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 241 GTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGG 300
Query 301 GCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAG 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 301 GCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAG 360
Query 361 TGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGA 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 361 TGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGA 420
Query 421 AGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGG 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 421 AGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGG 480
Query 481 AGCTAGAACA 490
||||||||||
Sbjct 481 AGCTAGAACA 490
> gi|377833530|ref|XR_141831.1| PREDICTED: Mus musculus predicted
gene, 19553 (Gm19553), miscRNA
Length=570
Score = 900 bits (487), Expect = 0.0
Identities = 489/490 (99%), Gaps = 0/490 (0%)
Strand=Plus/Minus
Query 1 GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCA 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 570 GAGGTGAAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCCA 511
Query 61 CCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGG 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 510 CCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGG 451
Query 121 GTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCC 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 450 GTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCC 391
Query 181 AAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCAT 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 390 AAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCAT 331
Query 241 GTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGG 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 330 GTCCGCCCGCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGG 271
Query 301 GCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAG 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 270 GCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAG 211
Query 361 TGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGA 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 210 TGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGA 151
Query 421 AGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGG 480
||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 150 AGTTGGAGAAGGTGGAACCAACTCCAGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGG 91
Query 481 AGCTAGAACA 490
||||||||||
Sbjct 90 AGCTAGAACA 81
> gi|260269517|ref|NM_001009178.2| Rattus norvegicus POU class
5 homeobox 1 (Pou5f1), mRNA
Length=1388
Score = 734 bits (397), Expect = 0.0
Identities = 459/489 (94%), Gaps = 3/489 (1%)
Strand=Plus/Plus
Query 1 GAGGTG-AAACCGTCCCTAGGTGAGCCGTCTTTCCACCAGGCCCCCGGCTCGGGGTGCCC 59
|||||| |||| ||||||||||||| |||| |||||||||||||||||||||||| ||||
Sbjct 12 GAGGTGCAAACAGTCCCTAGGTGAGTCGTCCTTCCACCAGGCCCCCGGCTCGGGGAGCCC 71
Query 60 ACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGG 119
||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct 72 ACCTTCCCCATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCTGGTGGG 131
Query 120 GGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTC 179
|||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct 132 GGTGATGGGTCAGCAGGGCTGGAGCCGGGCTGGGTGGACCCTCGAACCTGGCTAAGCTTC 191
Query 180 CAAGGGCCTCCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCA 239
|| ||||||||| |||||||||||||||||||||| |||||||| |||||||||||||
Sbjct 192 CAGGGGCCTCCAAGTGGGCCTGGAATCGGACCAGGTTCAGAGGTGCTGGGGATCTCCCCG 251
Query 240 TGTCCGCCC-GCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACT 298
||||| ||| |||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct 252 TGTCC-CCCAGCATACGAGTTCTGTGGAGGGATGGCATACTGTGGACCTCAGGTTGGACT 310
Query 299 GGGCCTAGTCCCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACG 358
||||||||||||||||||||||||||||||| ||||||| ||||||||||||||||||||
Sbjct 311 GGGCCTAGTCCCCCAAGTTGGCGTGGAGACTCTGCAGCCCGAGGGCCAGGCAGGAGCACG 370
Query 359 AGTGGAAAGCAACTCAGAGGGAACCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGT 418
|||||| |||||||| |||||| ||||||||| ||||||| | | |||||||| |||||
Sbjct 371 AGTGGAGAGCAACTCGGAGGGAGCCTCCTCTGGGCCCTGTACTGCCCGCCCCAGCGCCGT 430
Query 419 GAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAA 478
||||||||||||||||||||| | |||||||||||||||||| |||||||||||||||||
Sbjct 431 GAAGTTGGAGAAGGTGGAACCTAGTCCCGAGGAGTCCCAGGATATGAAAGCCCTGCAGAA 490
Query 479 GGAGCTAGA 487
|||||||||
Sbjct 491 GGAGCTAGA 499
> gi|295390144|ref|NR_033594.1| Mus musculus predicted gene 5712
(Gm5712), non-coding RNA
Length=1040
Score = 446 bits (241), Expect = 2e-127
Identities = 367/422 (87%), Gaps = 32/422 (8%)
Strand=Plus/Plus
Query 69 ATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGG 128
|||||||||||||||||||||||||||||||||||||||| |||||||||||| ||||||
Sbjct 1 ATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCC-ACCAGGTGGGGGCGATGGG 59
Query 129 TCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCT 188
||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 60 TCAGCAGGGCTGGAGCCGGGCTGGGTGGACCCTCGAACCTGGCTAAGCTTCCAAGGGCCT 119
Query 189 CCAGGTGGGCCTGGAATCGGACCAGGCTCAGAGGTATTGGGGATCTCCCCATGTCCGCCC 248
| |||||||||||||| |||||||||| |||||||||||| |||||||||||||| ||
Sbjct 120 CTGGGTGGGCCTGGAATAGGACCAGGCTTAGAGGTATTGGG-ATCTCCCCATGTCCACCG 178
Query 249 GCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGGACTGGGCCTAGTC 308
| ||| ||||||||||||||||||||||||||||||||||||| |||| | ||
Sbjct 179 GTATATGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGG-----CTGG-C---GT- 228
Query 309 CCCCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAGCACGAGTGGAAAGC 368
| | ||||||||||||||||| |||||||| ||||| | ||||| |||
Sbjct 229 ------G--G------AGACTTTGCAGCCTGAGAGCCAGGCAAGAGCAGGTGTGGAGAGC 274
Query 369 AACTCAGAGGGAA-CCTCCTCTGAGCCCTGTGCCGACCGCCCCAATGCCGTGAAGTTGGA 427
|||||||||| || ||| ||||| ||| |||||||||| ||||| |||||||||||||||
Sbjct 275 AACTCAGAGG-AAGCCTTCTCTGGGCCTTGTGCCGACCACCCCAGTGCCGTGAAGTTGGA 333
Query 428 GAAG-GTGGAACCAAC-TCCCGAGGAGTCCCAGGACATGAAAGCCCTGCAGAAGGAGCTA 485
|| | | ||||||| | |||||||| ||||||||||||||||| ||||||||||||||||
Sbjct 334 GATGAG-GGAACCA-CGTCCCGAGGGGTCCCAGGACATGAAAGTCCTGCAGAAGGAGCTA 391
Query 486 GA 487
||
Sbjct 392 GA 393
> gi|354487499|ref|XM_003505863.1| PREDICTED: Cricetulus griseus
POU domain, class 5, transcription factor 1-like (LOC100754998),
mRNA
Length=1077
Score = 433 bits (234), Expect = 1e-123
Identities = 377/442 (85%), Gaps = 25/442 (6%)
Strand=Plus/Plus
Query 69 ATGGCTGGACACCTGGCTTCAGACTTCGCCTTCTCACCCCCACCAGGTGGGGGTGATGGG 128
|||||||||||||||||||||||||| ||||||||||| ||||| |||||||||||||||
Sbjct 1 ATGGCTGGACACCTGGCTTCAGACTTTGCCTTCTCACCTCCACCTGGTGGGGGTGATGGG 60
Query 129 TCAGCAGGGCTGGAGCCGGGCTGGGTGGATCCTCGAACCTGGCTAAGCTTCCAAGGGCCT 188
|||| |||||||||||| ||||||||||| ||||| |||||||||||||||||||||||
Sbjct 61 TCAGGAGGGCTGGAGCCTGGCTGGGTGGACCCTCGGACCTGGCTAAGCTTCCAAGGGCCA 120
Query 189 CCAGGTGGGCCTGGAAT-----C-------GGACCAGGCTCAGAGGTATTGGGGATCTCC 236
||||||||||||||||| | |||||||||||||| || ||||||| |||
Sbjct 121 CCAGGTGGGCCTGGAATCGGGCCAGGGGTTGGACCAGGCTCAGAAGTGCTGGGGATTTCC 180
Query 237 CCATGTCCGCCC-GCATACGAGTTCTGCGGAGGGATGGCATACTGTGGACCTCAGGTTGG 295
|| ||||| ||| ||||||||||||| |||||| |||||||||||||||||||||||||
Sbjct 181 CCTTGTCC-CCCACCATACGAGTTCTGTGGAGGGGTGGCATACTGTGGACCTCAGGTTGG 239
Query 296 ACTGGGCCTAGTCCC-CCAAGTTGGCGTGGAGACTTTGCAGCCTGAGGGCCAGGCAGGAG 354
|||||| ||||| || ||| |||||| ||||||||| ||||||||||||||| ||||||
Sbjct 240 ACTGGGTCTAGTGCCGCCA-GTTGGCCTGGAGACTTCACAGCCTGAGGGCCAGTCAGGAG 298
Query 355 CACGAGTGGA-AAGCAACTCAGAGG-GAACCTCCTCTGAGCCCTGTGCCGACC-GCCCCA 411
|| ||||||| || | |||| |||| | ||||| ||| ||||||| | | || | ||||
Sbjct 299 CAGGAGTGGAGAA-CGACTCGGAGGAGT-CCTCCCCTGGGCCCTGTACTG-CCAGGCCCA 355
Query 412 ATG-CC--GTGAAGTTGGAGAAGGTGGAACCAACTCCCGAGGAGTCCCAGGACATGAAAG 468
|| || ||||||||||||||||||||||| | |||||||||||||||||| |||| |
Sbjct 356 TTGTCCCCGTGAAGTTGGAGAAGGTGGAACCGAGTCCCGAGGAGTCCCAGGATGTGAAGG 415
Query 469 CCCTGCAGAAGGAGCTAGAACA 490
|| |||||||||| || |||||
Sbjct 416 CCTTGCAGAAGGAACTGGAACA 437
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 31860807
Query= hg19_dna range=chr1:1207307-1207372 5'pad=0 3'pad=0 strand=+
repeatMasking=none
Length=66
Score E
Sequences producing significant alignments: (Bits) Value
gi|94721341|ref|NM_001040441.1| Homo sapiens zinc finger and BT... 115 6e-29
gi|332237160|ref|XM_003267724.1| PREDICTED: Nomascus leucogenys... 115 6e-29
gi|332254616|ref|XM_003276378.1| PREDICTED: Nomascus leucogenys... 111 7e-28
gi|332865370|ref|XM_527768.3| PREDICTED: Pan troglodytes zinc f... 111 7e-28
gi|332865372|ref|XM_003318468.1| PREDICTED: Pan troglodytes zin... 111 7e-28
> gi|94721341|ref|NM_001040441.1| Homo sapiens zinc finger and
BTB domain containing 8A (ZBTB8A), mRNA
Length=7333
Score = 115 bits (62), Expect = 6e-29
Identities = 62/62 (100%), Gaps = 0/62 (0%)
Strand=Plus/Plus
Query 5 GCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCaaaaaaaaaaaaaaaa 64
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 3677 GCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCAAAAAAAAAAAAAAAA 3736
Query 65 aa 66
||
Sbjct 3737 AA 3738
Score = 99.0 bits (53), Expect = 6e-24
Identities = 53/53 (100%), Gaps = 0/53 (0%)
Strand=Plus/Plus
Query 6 CCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCaaaaaaaaaa 58
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2824 CCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCAAAAAAAAAA 2876
> gi|332237160|ref|XM_003267724.1| PREDICTED: Nomascus leucogenys
ATG14 autophagy related 14 homolog (S. cerevisiae) (ATG14),
mRNA
Length=4771
Score = 115 bits (62), Expect = 6e-29
Identities = 62/62 (100%), Gaps = 0/62 (0%)
Strand=Plus/Plus
Query 5 GCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCaaaaaaaaaaaaaaaa 64
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2865 GCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCAAAAAAAAAAAAAAAA 2924
Query 65 aa 66
||
Sbjct 2925 AA 2926
> gi|332254616|ref|XM_003276378.1| PREDICTED: Nomascus leucogenys
S100P binding protein, transcript variant 2 (S100PBP), mRNA
Length=4345
Score = 111 bits (60), Expect = 7e-28
Identities = 64/66 (97%), Gaps = 0/66 (0%)
Strand=Plus/Minus
Query 1 TCAAGCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCaaaaaaaaaaaa 60
||| |||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 2857 TCATGCCACTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCAAAAAAAAAAAA 2798
Query 61 aaaaaa 66
||||||
Sbjct 2797 AAAAAA 2792
> gi|332865370|ref|XM_527768.3| PREDICTED: Pan troglodytes zinc
finger protein 273, transcript variant 2 (ZNF273), mRNA
Length=4335
Score = 111 bits (60), Expect = 7e-28
Identities = 64/66 (97%), Gaps = 0/66 (0%)
Strand=Plus/Minus
Query 1 TCAAGCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCaaaaaaaaaaaa 60
||| |||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct 2705 TCACGCCATTGCACTCCAGCCTGGGCAACAAGAGTGAAACTCCGTCTCAAAAAAAAAAAA 2646
Query 61 aaaaaa 66
||||||
Sbjct 2645 AAAAAA 2640
> gi|332865372|ref|XM_003318468.1| PREDICTED: Pan troglodytes zinc
finger protein 273, transcript variant 1 (ZNF273), mRNA
Length=4430
Score = 111 bits (60), Expect = 7e-28
Identities = 64/66 (97%), Gaps = 0/66 (0%)
Strand=Plus/Minus
Query 1 TCAAGCCATTGCACTCCAGCCTGGGCAACAAGAGCGAAACTCCGTCTCaaaaaaaaaaaa 60
||| |||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct 2800 TCACGCCATTGCACTCCAGCCTGGGCAACAAGAGTGAAACTCCGTCTCAAAAAAAAAAAA 2741
Query 61 aaaaaa 66
||||||
Sbjct 2740 AAAAAA 2735
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 3506256
Database: minirefseq_mrna
Posted date: Jun 9, 2012 2:05 PM
Number of letters in database: 67,750
Number of sequences in database: 23
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5
|
