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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaatttacttgaaaagtggacgttatgaggaagcaaaattcggtgtgtgtgtgcgtgttaattctacttgttcttaattgaatcatttttctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGGGTCAGTGATTCTCATTTCAGGATCTGATTTTGTTCGGGAGGTGTCACAA

Basic information

species Glycine max
transcript GLYMA19G22440.1
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|298172217|gb|HO021809.1|HO021809
EST:     GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAG                         GAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
genomic: GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAGgttctggttt ... tctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
EST: gi|41145599|gb|CK605810.1|CK605810
EST:     GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAG                         GAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
genomic: GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAGgttctggttt ... tctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
EST: gi|298188492|gb|HO035185.1|HO035185
EST:     GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCCCCAAGAATATAG                         GAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
genomic: GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAGgttctggttt ... tctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
EST: gi|192324499|gb|FK016780.1|FK016780
EST:     GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAG                         GAAGAAGAGGCTGGCTGAGATGCAAGAGGCGGCAAAAGTATTGAGGTTTGG
genomic: GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAGgttctggttt ... tctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
EST: gi|13477432|gb|BG507320.1|BG507320
EST:     GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAG                         GAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
genomic: GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAGgttctggttt ... tctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
EST: gi|298195220|gb|HO043748.1|HO043748
EST:     GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAG                         GAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG
genomic: GAAGACCTCGAAGATGACCTCGACGACGATCGCTTCCTCCAAGAATATAGgttctggttt ... tctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtgtgcgtgttaattctacttgttcttaattgaatcatttttctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGGGTCAGTGATTCTCATTTCAGGATCTGATTTTGTTCGGGAGGTGTCACAA
                           tcttaat  putative branch site (score: 3)
                                      tcatttttct  putative PPT
                             ttaattgaatcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaatttacttgaaaagtggacgttatgaggaagcaaaattcggtgtgtgtgtgcgtgttaattctacttgttcttaattgaatcatttttctgtgatagGAAGAAGAGGCTGGCTGAGATGCAAGAGGCAGCAAAAGTATTGAGGTTTGGGTCAGTGATTCTCATTTCAGGATCTGATTTTGTTCGGGAGGTGTCACAA

- - - - - - - - - - - - - - - -aagcaaaa
- - - - - - - - - - - - - - - - - - - - - -gtgtgtg