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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgagtattgttgttgaatattcccttaatgtgtttacaactttacattatgtacttcagcaaaaatgaaaaccgtttatattttactggactattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCCGAAGGATCTAGCAAAATCTATTTTATCTGAAGCAGGCTGGTCAAATTTT

Basic information

species Glycine max
transcript GLYMA12G02310.1
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|17401729|gb|BM178511.1|BM178511
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|209721615|gb|BW671744.1|BW671744
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|19269489|gb|BM885745.1|BM885745
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|193549295|gb|FK507102.1|FK507102
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|193704984|gb|FK643970.1|FK643970
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAAT
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAAT
EST: gi|209719968|gb|BW659407.1|BW659407
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|207824004|gb|GD796639.1|GD796639
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|209696858|gb|BW680480.1|BW680480
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|208333858|gb|GE132405.1|GE132405
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|7588705|gb|AW704495.1|AW704495
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|208115146|gb|GD910433.1|GD910433
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATAATATTGAAAGGAAATCTGTAAATTACCAA
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATA-TATTGAA-GGAA-TCTGTAAATTACCAA
EST: gi|192300938|gb|FG992998.1|FG992998
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|207678715|gb|GD661253.1|GD661253
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         T
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacag-
EST: gi|207678715|gb|GD661253.1|GD661253
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         T
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacag-
EST: gi|192326972|gb|FK019234.1|FK019234
EST:     GCAGTTCCTTCCACTGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|151395539|gb|EV265416.1|EV265416
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|151399889|gb|EV269760.1|EV269760
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|192324541|gb|FK016792.1|FK016792
EST:     GCAGTTCCCTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|11687857|gb|BF595533.1|BF595533
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|208226985|gb|GE023582.1|GE023582
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTC
EST: gi|7233437|gb|AW568783.1|AW568783
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|208236481|gb|GE031605.1|GE031605
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTC
EST: gi|193556283|gb|FK515692.1|FK515692
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|213606575|gb|DB972510.1|DB972510
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|27426119|gb|CA937639.1|CA937639
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
EST: gi|151394250|gb|EV264121.1|EV264121
EST:     GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACT                         GGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC
genomic: GCAGTTCCTTCCACCGTCCCGGCATTCCTTTGGTCATCACATTATGAACTgtaattcctc ... actattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattatgtacttcagcaaaaatgaaaaccgtttatattttactggactattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCCGAAGGATCTAGCAAAATCTATTTTATCTGAAGCAGGCTGGTCAAATTTT
                              tttatattttact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgagtattgttgttgaatattcccttaatgtgtttacaactttacattatgtacttcagcaaaaatgaaaaccgtttatattttactggactattacagGGCCTCTGAAAATATATTGAAGGAATCTGTAAATTACCAAGTCATTTCTCCGAAGGATCTAGCAAAATCTATTTTATCTGAAGCAGGCTGGTCAAATTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC