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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagggaatccaattaacaatttctcttatatcaaaattgtgaacagtatttaacaccagaatattatcttaatcattctgcaatgaaaacttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATTAGGCGGCAGATGGGTCTCAGCTTCCCGCATTCTGCCGGTACATAGATGT

Basic information

species Glycine max
transcript GLYMA12G15470.1
intron # 11
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|208176808|gb|GD975235.1|GD975235
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTT-CAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|207775877|gb|GD748652.1|GD748652
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCA
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCA
EST: gi|16996079|gb|BM085451.1|BM085451
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193539389|gb|FK497743.1|FK497743
EST:     CCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAACTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: CCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|254341726|gb|GR852863.1|GR852863
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|208211396|gb|GE009531.1|GE009531
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|192301990|gb|FG995160.1|FG995160
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|31306112|gb|CD391315.1|CD391315
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|207694587|gb|GD678322.1|GD678322
EST:     GGCTACCTAATGGCCGTCCACTG-CCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193651509|gb|FK594652.1|FK594652
EST:     GGCCATCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193415649|gb|FK380609.1|FK380609
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|209723556|gb|BW672206.1|BW672206
EST:     ACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: ACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193429319|gb|FK398495.1|FK398495
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAA
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAA
EST: gi|15337416|gb|BI498072.1|BI498072
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193455304|gb|FK417811.1|FK417811
EST:     TAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: TAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|208305637|gb|GE109078.1|GE109078
EST:     CCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAAAATAAGGCTCATCCCAGAGCAT
genomic: CCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATC--AAT-AGGCTCATCCCAGAGCAT
EST: gi|254322923|gb|GR835638.1|GR835638
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|7685735|gb|AW756383.1|AW756383
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|31475663|gb|CD417691.1|CD417691
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCTATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|48575547|gb|CO036458.1|CO036458
EST:     GGCTACCTAATGGCCGTCCACTGTCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
EST: gi|193518950|gb|FK475793.1|FK475793
EST:     GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAG                         TTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT
genomic: GGCTACCTAATGGCCGTCCACTGCCCCCACTTTTCAACTTCAAACAGGAGgtatatatct ... ttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatttaacaccagaatattatcttaatcattctgcaatgaaaacttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATTAGGCGGCAGATGGGTCTCAGCTTCCCGCATTCTGCCGGTACATAGATGT
                                           acttaac  putative branch site (score: 3)
              aatattatcttaatca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagggaatccaattaacaatttctcttatatcaaaattgtgaacagtatttaacaccagaatattatcttaatcattctgcaatgaaaacttaactacagTTAGCTGGAGCATCACCTGAACTGATCAATAGGCTCATCCCAGAGCATATTAGGCGGCAGATGGGTCTCAGCTTCCCGCATTCTGCCGGTACATAGATGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - -tgtgaac
- - - - - - - - - - - - - - - - - - - - - - - - - -aacacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctgca