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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tataggagagtctgtcatattgttattttatttaaattggaatattgaattttcaatggattgatgaactattattgaactggttattatatttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCTGGTGATCCCGTTCATCAAATTATTGGGAGTTTGAGCG

Basic information

species Glycine max
transcript GLYMA20G11950.1
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|298174219|gb|HO017555.1|HO017555
EST:     ATTTTAAAAAACTTTTCGTCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|9899975|gb|BE608943.1|BE608943
EST:     ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|193539305|gb|FK497715.1|FK497715
EST:     ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|193727061|gb|FK660275.1|FK660275
EST:     NTTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|209719845|gb|BW674997.1|BW674997
EST:     ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|193721822|gb|FK658306.1|FK658306
EST:     ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|193711761|gb|FK647860.1|FK647860
EST:     ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
EST: gi|298178813|gb|HO024548.1|HO024548
EST:     ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACT                         GTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT
genomic: ATTTTAAAAAACTTTTCATCTATCCACGTCGTATTCGGCATGAGTCAACTgtaagtgata ... atttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattttcaatggattgatgaactattattgaactggttattatatttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCTGGTGATCCCGTTCATCAAATTATTGGGAGTTTGAGCG
             gattgat  putative branch site (score: 4)
                                            tattttt  putative PPT
                        tattattgaactggtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tataggagagtctgtcatattgttattttatttaaattggaatattgaattttcaatggattgatgaactattattgaactggttattatatttttacagGTAGGCGCTGGTCTTCCTGTGATAGCATCACTGAATCGCATAATCTCTTCTGGTGATCCCGTTCATCAAATTATTGGGAGTTTGAGCG

- - - -gagtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actggtt