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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatggaatgaattgttgtgttctgttaccctagattttaccctcaaaatgtaccattttattatagtattaatttgtcattgctgtaatttttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG

Basic information

species Glycine max
transcript GLYMA13G33920.1
intron # 6
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|151404895|gb|EV274709.1|EV274709
EST:     CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAG                         GAGGTGGGGCTTCCAAGTCAGATGGCTAGGTTTTCCAAG
genomic: CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAGgtaggagaaa ... tttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
EST: gi|17519618|gb|BM188660.1|BM188660
EST:     CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAG                         GAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
genomic: CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAGgtaggagaaa ... tttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
EST: gi|151397360|gb|EV267233.1|EV267233
EST:     CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAG                         GAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
genomic: CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAGgtaggagaaa ... tttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
EST: gi|10845804|gb|BF068846.1|BF068846
EST:     CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAG                         GAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
genomic: CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAGgtaggagaaa ... tttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
EST: gi|192294635|gb|FG986484.1|FG986484
EST:     CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAG                         GAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
genomic: CAACGAGGGTGTACGTGAACAACGATGAGGCCTGTTATCACGGAAGAAAGgtaggagaaa ... tttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgtaccattttattatagtattaatttgtcattgctgtaatttttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG
                     tattaat  putative branch site (score: 2)
                                           tttttttttc  putative PPT
         attttattatagtatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatggaatgaattgttgtgttctgttaccctagattttaccctcaaaatgtaccattttattatagtattaatttgtcattgctgtaatttttttttcagGAGGTGGGACTTCCAAGTCAGATGGCTAGGTTTTCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- -ggaatga
- - - - - - - -tgtgttc
- - - - - - - - - - - tgttacc
- - - - - - - - - - - - - - - - - - - - cctcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgta