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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTCCCGAACACGAAAGTCGAAACCCGAACTCACTTCCTCACCCCATCATCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattttatttttcatattctctgcgatttctattgttcagttccgaaaagcaacactttgctctcgtggtttttatgtgccactaaacgaatcgt...

Basic information

species Glycine max
transcript GLYMA01G25940.1
intron # 1
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|192309680|gb|FG999893.1|FG999893
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|24206299|gb|BU965552.1|BU965552
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|9564578|gb|BE474087.1|BE474087
EST:     GCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: GCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|213598011|gb|DB972199.1|DB972199
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|7924388|gb|AW830414.1|AW830414
EST:     AGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: AGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|21602716|gb|BQ613047.1|BQ613047
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|120494647|gb|EH222814.1|EH222814
EST:     GAGTCGCCAGCGCAGCCCCGAAACCTAGT-C-                         -----CA-TTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: GAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|14258901|gb|BG881809.1|BG881809
EST:     GCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: GCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|4313519|gb|AI460638.1|AI460638
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|6073037|gb|AW102424.1|AW102424
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|7925135|gb|AW831161.1|AW831161
EST:     GTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: GTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|19269188|gb|BM885444.1|BM885444
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGT-C-                         -----CA-TTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|4397406|gb|AI496403.1|AI496403
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|21889053|gb|BQ742266.1|BQ742266
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|19052912|gb|BM731579.1|BM731579
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|20448816|gb|BQ252940.1|BQ252940
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|192316846|gb|FK010833.1|FK010833
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|192326825|gb|FK018922.1|FK018922
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|21888974|gb|BQ742187.1|BQ742187
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
EST: gi|23735184|gb|BU765862.1|BU765862
EST:     TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCA                         GTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT
genomic: TCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattt ... tgggtataagGTTTGCAGTTTCTTGTGCGGTTTATCATGGGGGATAGTCAGTATTCGTTTT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCTCCCGAACACGAAAGTCGAAACCCGAACTCACTTCCTCACCCCATCATCGCAGCCTCGAAACCCTGAGTCGCCAGCGCAGCCCCGAAACCTAGTCCAgtaagtattttatttttcatattctctgcgatttctattgttcagttccgaaaagcaacactttgctctcgtggtttttatgtgccactaaacgaatcgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagcaa