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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCAAGTGGAAGATTGTTGTGGGGCATCATCCTGTAAGAAGCATAGGACATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatttaggccaatatatattttattgtatactatataagaaaatcctagtgataaaattaaacttgcag

Basic information

species Glycine max
transcript GLYMA05G33640.1
intron # 5
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|19270123|gb|BM886379.1|BM886379
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|208143951|gb|GD941568.1|GD941568
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|151396212|gb|EV266089.1|EV266089
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|31472707|gb|CD414735.1|CD414735
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|209707342|gb|BW670621.1|BW670621
EST:     CAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: CAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|151406975|gb|EV276790.1|EV276790
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|193326435|gb|FK291518.1|FK291518
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|120534060|gb|EH262193.1|EH262193
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|208047392|gb|GD847373.1|GD847373
EST:     CCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: CCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|254314579|gb|GR829572.1|GR829572
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|207749236|gb|GD720066.1|GD720066
EST:     TCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: TCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|11274883|gb|BF325208.1|BF325208
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|207806822|gb|GD778403.1|GD778403
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|254314578|gb|GR829571.1|GR829571
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|208160057|gb|GD957037.1|GD957037
EST:     ACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTCGGAACAC
genomic: ACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|207719411|gb|GD703856.1|GD703856
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|207762677|gb|GD732908.1|GD732908
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|193588085|gb|FK543106.1|FK543106
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTA
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTA
EST: gi|9987619|gb|BE661727.1|BE661727
EST:     ATCACNGTGACACCAAAGAGCTCATAAGACAGCTTCTGCCCATTCTTGAG                         GAAAATAATGTGGATATTGTACATTA
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATAT-GTACATTA
EST: gi|192299309|gb|FG990734.1|FG990734
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|207748682|gb|GD717999.1|GD717999
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTCGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|207821442|gb|GD790157.1|GD790157
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAAACA
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAA-CA
EST: gi|192328997|gb|FK019696.1|FK019696
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAA-TAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
EST: gi|192301322|gb|FG990212.1|FG990212
EST:     ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAG                         GAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC
genomic: ATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatt ... aaacttgcagGAAAATAATGTGGATATGTACATTAATGGGCATGACCATTGCTTGGAACAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCCAAGTGGAAGATTGTTGTGGGGCATCATCCTGTAAGAAGCATAGGACATCACGGTGACACCAAAGAGCTCATAAGACAGCTCCTGCCAATTCTTGAGgtcattcatttaggccaatatatattttattgtatactatataagaaaatcctagtgataaaattaaacttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC