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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaatgcgtgcagcgatatgaccaaatattattttctctttttcttttcctaagtttgagaatatgtttaataagtggtttatgcatttcctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAATCACGCTGCTGAGTACTTCACCTCA

Basic information

species Glycine max
transcript GLYMA19G37750.2
intron # 20
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|26057268|gb|CA800182.1|CA800182
EST:     ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAG                         ATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
genomic: ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAGgtatatttgt ... ctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
EST: gi|15287288|gb|BI471179.1|BI471179
EST:     CTCAACCCCTGGGAAATATAAG                         ATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
genomic: CTCAACCCCTGGGAAATATAAGgtatatttgt ... ctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
EST: gi|22523453|gb|BU082264.1|BU082264
EST:     ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAG                         ATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
genomic: ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAGgtatatttgt ... ctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
EST: gi|6916123|gb|AW397653.1|AW397653
EST:     ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAG                         ATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
genomic: ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAGgtatatttgt ... ctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
EST: gi|19347171|gb|BM892051.1|BM892051
EST:     ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAG                         ATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
genomic: ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAGgtatatttgt ... ctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
EST: gi|298176060|gb|HO015465.1|HO015465
EST:     ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAG                         ATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT
genomic: ACAGCTATTCAGATTACAGAGTTGGCTGCTCAACCCCTGGGAAATATAAGgtatatttgt ... ctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcctaagtttgagaatatgtttaataagtggtttatgcatttcctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAATCACGCTGCTGAGTACTTCACCTCA
                    gtttaat  putative branch site (score: 4)
                                     tgcatttcctttttcc  putative PPT
             agaatatgtttaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaatgcgtgcagcgatatgaccaaatattattttctctttttcttttcctaagtttgagaatatgtttaataagtggtttatgcatttcctttttccagATTGTCTTGGATTCAGATGATGCCTTGTTTGGTGGCTTCAGTAGGCTCAATCACGCTGCTGAGTACTTCACCTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - tgcgtgc
- - - - - - - - - - -ccaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatttc