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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtctgtgcttacatagtttagtatatatgttgcttttgttaaataaagctatttttttaactaagaagacactccaaatattgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTTGGCTGTTCCTGAG

Basic information

species Glycine max
transcript GLYMA17G17520.2
intron # 7
splice site 3'
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|11688714|gb|BF596390.1|BF596390
EST:     ACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
genomic: ACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
EST: gi|18734981|gb|BM528497.1|BM528497
EST:     GATAAGTATCGAATAGAGTTGGACCCACATCTTGCAGCACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCAAAGTTCATTAATGTAGAAAATCATCAC
genomic: GATAAGTATCGAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCAC
EST: gi|10231684|gb|BE800572.1|BE800572
EST:     GCACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
genomic: GCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
EST: gi|21887281|gb|BQ740494.1|BQ740494
EST:     GATAAGTATCGAATAGAGTTGGACCCACATCTTGCAGCACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCAAAGTTCATTAATGTAGAAAATCATCACAT
genomic: GATAAGTATCGAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
EST: gi|17963627|gb|BM270374.1|BM270374
EST:     GATAAGTATCGAATAGAGTTGGACCCACATCTTGCAGCACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCAAAGTTCATTAATGTAGAAAATCATCACAT
genomic: GATAAGTATCGAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
EST: gi|14126494|gb|BG790932.1|BG790932
EST:     GAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGAAG                         GCATACCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
genomic: GAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
EST: gi|14260055|gb|BG882963.1|BG882963
EST:     GATAAGTATCGAATAGAGTTGGACCCACATCTTGCAACACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCAAAGTTCATTAAT
genomic: GATAAGTATCGAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAAT
EST: gi|254330876|gb|GR842141.1|GR842141
EST:     GATAAGTATCGAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAG                         GCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT
genomic: GATAAGTATCGAATAGAGTTGGACCCTCATCTTGCAGCACTTATCGGGAGgtttgtctgt ... attgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttaaataaagctatttttttaactaagaagacactccaaatattgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTTGGCTGTTCCTGAG
                    ttttaac  putative branch site (score: 2)
     taaataaagctatttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtctgtgcttacatagtttagtatatatgttgcttttgttaaataaagctatttttttaactaagaagacactccaaatattgtgacagGCATAGCCGCAAGCCATGGGCGAAGTTCATTAATGTAGAAAATCATCACTTGGCTGTTCCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT