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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagtgcctatgtaggacaatttttatgcatttaaagcctttgttttcttacaatatgtatgagttggattttaaaccttagttgaacatggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAGCGGTGCATACTGTGCCCCCTCCTTCCCCAAGGCCACGAAATGAATCACC

Basic information

species Glycine max
transcript GLYMA16G08350.2
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|213590935|gb|DB973732.1|DB973732
EST:     AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGA                         GTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
genomic: AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGAgtatgtgttt ... ggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
EST: gi|213594699|gb|DB959810.1|DB959810
EST:     AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGA                         GTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
genomic: AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGAgtatgtgttt ... ggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
EST: gi|209727652|gb|BW652025.1|BW652025
EST:     AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGA                         GTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
genomic: AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGAgtatgtgttt ... ggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
EST: gi|209708017|gb|BW657072.1|BW657072
EST:     AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGA                         GTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
genomic: AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGAgtatgtgttt ... ggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
EST: gi|213600369|gb|DB964365.1|DB964365
EST:     AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGA                         GTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG
genomic: AGCCAACCCTCCTTCTGCTCAATCTTCTGCATGGCTCTCTTCCATTTCGAgtatgtgttt ... ggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttacaatatgtatgagttggattttaaaccttagttgaacatggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAGCGGTGCATACTGTGCCCCCTCCTTCCCCAAGGCCACGAAATGAATCACC
 ttcttac  putative branch site (score: 2)
 attttaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtgcctatgtaggacaatttttatgcatttaaagcctttgttttcttacaatatgtatgagttggattttaaaccttagttgaacatggttttgcagGTGATGCAACTCATGTTACGGATCAGACACTAAATGTTTCTCAGTCAGCAGCGGTGCATACTGTGCCCCCTCCTTCCCCAAGGCCACGAAATGAATCACC

- - - cctatgt
- - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtatga