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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcatctttgcattattaatgtgaccaattctatgcaatttactctaactatttcgctccttggattttaattaacttatataatgccacacatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAATAAGCTTGGAAGCTTTGCTAGATCCTTGCTATTTGGCATCCCTCCTTCA

Basic information

species Glycine max
transcript GLYMA16G20030.1
intron # 3
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|193604539|gb|FK557698.1|FK557698
EST:     TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTG                         GTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
genomic: TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTGgtgagagttt ... acatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
EST: gi|209725312|gb|BW658223.1|BW658223
EST:     TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTG                         GTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
genomic: TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTGgtgagagttt ... acatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
EST: gi|192326576|gb|FK018478.1|FK018478
EST:     TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTG                         GTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
genomic: TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTGgtgagagttt ... acatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
EST: gi|208067956|gb|GD861466.1|GD861466
EST:     TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTG                         GTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
genomic: TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTGgtgagagttt ... acatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
EST: gi|208234179|gb|GE033222.1|GE033222
EST:     TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTG                         GTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT
genomic: TTTCGATTGGGGTTGGGTTTGCCCTCTCTGCTGTACTCGGAGTCACTTTGgtgagagttt ... acatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactatttcgctccttggattttaattaacttatataatgccacacatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAATAAGCTTGGAAGCTTTGCTAGATCCTTGCTATTTGGCATCCCTCCTTCA
                        aattaac  putative branch site (score: 2)
               ttggattttaattaac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcatctttgcattattaatgtgaccaattctatgcaatttactctaactatttcgctccttggattttaattaacttatataatgccacacatgcccagGTTCTCCTTTGGGAACTAGCCAGAACATTGCATCTCTGTGCCGGCAGCAATAAGCTTGGAAGCTTTGCTAGATCCTTGCTATTTGGCATCCCTCCTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - tgcatta
- - - - - - - - - -tgtgacc
- - - - - - - - - - - - - - - ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcca