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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtaagtcactaatttccatggacattaattgtgatatttcccactttgttgtgcttttctaaaaatgttcacttcaattttctcacttgctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATGCAGAG

Basic information

species Glycine max
transcript GLYMA13G36690.1
intron # 5
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|151407354|gb|EV277169.1|EV277169
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCACAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209711648|gb|BW671359.1|BW671359
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|193677069|gb|FK619227.1|FK619227
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTG
EST: gi|58017492|gb|CX704234.1|CX704234
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|192301451|gb|FG998415.1|FG998415
EST:     TCTCAGGGACGACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|151411607|gb|EV281418.1|EV281418
EST:     TCTCAGG-ACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGG
EST: gi|9204958|gb|BE331182.1|BE331182
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|208049710|gb|GD847073.1|GD847073
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|151403064|gb|EV272874.1|EV272874
EST:     TCTCAGG-ACAACCTAACTTTGTGGACTTCTGACATCCCAGA-GATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAG
EST: gi|193487077|gb|FK450518.1|FK450518
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209725077|gb|BW659785.1|BW659785
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTG
EST: gi|209709690|gb|BW668226.1|BW668226
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|254316527|gb|GR828064.1|GR828064
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209703002|gb|BW656059.1|BW656059
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209725078|gb|BW659786.1|BW659786
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209705112|gb|BW653335.1|BW653335
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|17963820|gb|BM270564.1|BM270564
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAAGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|213602820|gb|DB978151.1|DB978151
EST:     CACAGGGACAACCTAACTTTGTGGACTGAC-GACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: CTCAGGGACAACCTAACTTTGTGGACT-TCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|193665078|gb|FK612088.1|FK612088
EST:     TTCTGACATCCCTAGTAAGTATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGAT
genomic: TTCTGACATCCC-AG-AAG-ATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGAT
EST: gi|208057003|gb|GD851252.1|GD851252
EST:     ACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: ACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|213588202|gb|DB984261.1|DB984261
EST:     AGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACAAG-CAAGCTTGGTGGAGGTGAGGAT
genomic: AGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCAC-TGCCAAGCTTGGTGGAGGTGAGGAT
EST: gi|209729014|gb|BW651766.1|BW651766
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209712343|gb|BW671193.1|BW671193
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|192304319|gb|FG993575.1|FG993575
EST:     TCTCA-GGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|16997097|gb|BM086469.1|BM086469
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|193694954|gb|FK634340.1|FK634340
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTG
EST: gi|7146400|gb|AW508322.1|AW508322
EST:     TCTCAGGGACAACCTAACTTTGCGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|207753749|gb|GD724229.1|GD724229
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTT
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTT
EST: gi|209721041|gb|BW666298.1|BW666298
EST:     CAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: CAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|24205692|gb|BU964945.1|BU964945
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|193324892|gb|FK290190.1|FK290190
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|208279315|gb|GE073606.1|GE073606
EST:     CAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: CAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|10848239|gb|BF071695.1|BF071695
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|58022604|gb|CX709345.1|CX709345
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|6666341|gb|AW277800.1|AW277800
EST:     TGTCAGGGACAACCTAACTGTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCNCAGAAAGTGAATGGCACTGGCAAG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAG
EST: gi|31474413|gb|CD416441.1|CD416441
EST:     TCTCAGGGACTACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|209719932|gb|BW666015.1|BW666015
EST:     TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: TCTCAGGGACAACCTAACTTTGTGGACTTCTGACATCCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG
EST: gi|213588753|gb|DB984322.1|DB984322
EST:     CCCAGAAGATGGAG                         AAGATGCCCAGAAAGTGAATGGCTCTGCCAAGCTTGGTGGAGGTGAGGATG
genomic: CCCAGAAGATGGAGgtaattatta ... gctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttgttgtgcttttctaaaaatgttcacttcaattttctcacttgctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATGCAGAG
                                    ttctcac  putative branch site (score: 2)
                                  ttttctcacttgct  CT-rich tract
           ttttctaaaaatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgtaagtcactaatttccatggacattaattgtgatatttcccactttgttgtgcttttctaaaaatgttcacttcaattttctcacttgctgttacagAAGATGCCCAGAAAGTGAATGGCACTGCCAAGCTTGGTGGAGGTGAGGATGCAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - catggac
- - - - - - - - - - - - - - - - - - - -ttcccac
- - - - - - - - - - - - - - - - - - - - - - - - tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttca