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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtatgtagtgtcatgtttgcaaatgttgcctccttagattaaccaataaacttgcatcaagtttatatgcattaaagaccaagctactctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCGGCTGGGCTCCAATTCTCCAAGATGAGCAATTCTCACTCTGAAAATCAT

Basic information

species Glycine max
transcript GLYMA12G08370.1
intron # 1
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|209726550|gb|BW662864.1|BW662864
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|298194823|gb|HO043295.1|HO043295
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|192334341|gb|FK024090.1|FK024090
EST:     TTGGATTCCCTCCCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|209726551|gb|BW662865.1|BW662865
EST:     GGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: GGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|213606893|gb|DB961048.1|DB961048
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|193346686|gb|FK312138.1|FK312138
EST:     CCCACCGAGTCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: CCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|7235178|gb|AW570507.1|AW570507
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|192299134|gb|FG992880.1|FG992880
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|192299135|gb|FG992881.1|FG992881
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|193337581|gb|FK304599.1|FK304599
EST:     CCACCGAGTCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: CCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|192327297|gb|FK018119.1|FK018119
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
EST: gi|298171710|gb|HO021302.1|HO021302
EST:     TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCG                         GTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG
genomic: TTGGATTCCCTCTCTCTATCTCGCCAAATCCCACCGAATCGTGCGACGCGgtatgactat ... ctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caataaacttgcatcaagtttatatgcattaaagaccaagctactctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCGGCTGGGCTCCAATTCTCCAAGATGAGCAATTCTCACTCTGAAAATCAT
                                        ctactctttcttc  CT-rich tract
                  tttatatgcattaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtatgtagtgtcatgtttgcaaatgttgcctccttagattaaccaataaacttgcatcaagtttatatgcattaaagaccaagctactctttcttcagGTATATTGGAATCTCACTTGGGTTCTAATTGATGCATTCACACCATTAGCGGCTGGGCTCCAATTCTCCAAGATGAGCAATTCTCACTCTGAAAATCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
-tgtatgt
- - - - - - - -tgtttgc
- - - - - - - - - - - - - - - cctcctt
- - - - - - - - - - - - - - - - - - - - - - ccaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - cttgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagct