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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgctagctgattcatgtgctcgatggtgttgtggatgaatatttgaacatacgacccatgtcatgtgattgatgaacctttctaacattatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCTGCTATAAATCCTCATTTCTCCAATTATACA

Basic information

species Glycine max
transcript GLYMA19G41120.1
intron # 2
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|22524028|gb|BU082839.1|BU082839
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|7796797|gb|AW782191.1|AW782191
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|254322390|gb|GR837804.1|GR837804
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|298196328|gb|HO044719.1|HO044719
EST:     CGAAAGCACAACCTTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCCGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|7925061|gb|AW831087.1|AW831087
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|11413286|gb|BF425297.1|BF425297
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAN                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|7591427|gb|AW707160.1|AW707160
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|192330291|gb|FK020576.1|FK020576
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|13480326|gb|BG509669.1|BG509669
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|192314667|gb|FK005949.1|FK005949
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|120493127|gb|EH221294.1|EH221294
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|6454707|gb|AW185390.1|AW185390
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|151407971|gb|EV277786.1|EV277786
EST:     CGAAAGCACAACCGTTGACTAATCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGTAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|9986531|gb|BE660639.1|BE660639
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|9986532|gb|BE660640.1|BE660640
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|19452880|gb|BM954290.1|BM954290
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|24136646|gb|BU927156.1|BU927156
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|19934893|gb|BQ079914.1|BQ079914
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|209724787|gb|BW672570.1|BW672570
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|22524928|gb|BU083739.1|BU083739
EST:     AACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: AACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|192314666|gb|FK005948.1|FK005948
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|6482896|gb|AW202106.1|AW202106
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|19452860|gb|BM954270.1|BM954270
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|208188697|gb|GD987245.1|GD987245
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|298174540|gb|HO017763.1|HO017763
EST:     CGAAAGCACAACCTTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAGTGAAAATCCCGAGGCAGGATGGGAAGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|23733671|gb|BU765041.1|BU765041
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|21889139|gb|BQ742352.1|BQ742352
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|11688232|gb|BF595908.1|BF595908
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
EST: gi|24205547|gb|BU964800.1|BU964800
EST:     CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAG                         GAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT
genomic: CGAAAGCACAACCGTTGACTAGTCTCAAGCTTAACTCTCCGATCCTTCAGgtcattcatt ... tatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaacatacgacccatgtcatgtgattgatgaacctttctaacattatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCTGCTATAAATCCTCATTTCTCCAATTATACA
                                    ttctaac  putative branch site (score: 1)
                                       taacattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgctagctgattcatgtgctcgatggtgttgtggatgaatatttgaacatacgacccatgtcatgtgattgatgaacctttctaacattatgatgcagGAGTCTATTGCTAAAGAGATCAATGAAAATCCTGAGGCAGGATGGGAGGCTGCTATAAATCCTCATTTCTCCAATTATACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
catgcta
- - - -gctgatt
- - - - - - -tcatgtg
- - - - - - - catgtgc
- - - - - - - - - - - - - ggtgttg
- - - - - - - - - - - - - - - - -tggatga
- - - - - - - - - - - - - - - - - - - - - - - - - - -cgaccca