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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatatcttaatatgtgcatgcatattagcaaattcttttttaagctcatttcatagttagcaaatgctaattgtattcatgttacacccacacaacaccaccatagcatacatgcatgagttttacttaattgactctggcactgatcatataatctttgattggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGACTAAAAAATAATAGTTGTTGCACTTGGAATTATGGGAAGAGTCCTAAGGA

Basic information

species Glycine max
transcript GLYMA20G32570.1
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|14516294|gb|BI094966.1|BI094966
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|20498711|gb|BQ273641.1|BQ273641
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|20812933|gb|BQ297411.1|BQ297411
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAT                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|20814747|gb|BQ299225.1|BQ299225
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|9984174|gb|BE658282.1|BE658282
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|20207627|gb|BQ133716.1|BQ133716
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|22524345|gb|BU083156.1|BU083156
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|20814813|gb|BQ299291.1|BQ299291
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCATTAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|31471618|gb|CD413646.1|CD413646
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCATAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGA
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCA-AGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGA
EST: gi|5606614|gb|AI900712.1|AI900712
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|12688512|gb|BG154848.1|BG154848
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|31467722|gb|CD409750.1|CD409750
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|31312062|gb|CD397265.1|CD397265
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATACGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|14516293|gb|BI094965.1|BI094965
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|151399543|gb|EV269414.1|EV269414
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|20813447|gb|BQ297925.1|BQ297925
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|209727273|gb|BW655258.1|BW655258
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
EST: gi|5752907|gb|AI960194.1|AI960194
EST:     GGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGA
genomic: GGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGG-AAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGA
EST: gi|213592370|gb|DB971582.1|DB971582
EST:     CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAG                         GCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC
genomic: CGGTCTCGAAACCAACCCCAAAGAAAATTCCAAGCCAGACTAGGAAGAAGgtatatatat ... ggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttacttaattgactctggcactgatcatataatctttgattggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGACTAAAAAATAATAGTTGTTGCACTTGGAATTATGGGAAGAGTCCTAAGGA
                                               tttttc  CT-rich tract
                              atataatctttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatatatcttaatatgtgcatgcatattagcaaattcttttttaagctcatttcatagttagcaaatgctaattgtattcatgttacacccacacaacaccaccatagcatacatgcatgagttttacttaattgactctggcactgatcatataatctttgattggtttttcagGCAAGCAGCAATAAATAAGCTGAAGATGCAAGAGTAAAAAGTACGAAAGACTAAAAAATAATAGTTGTTGCACTTGGAATTATGGGAAGAGTCCTAAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA