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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatccttctctgttaaattcaaagaaagaaaattttacatattgatcttaataatgtccattttgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAAAGCTCAAGGCTGGGAG

Basic information

species Glycine max
transcript GLYMA13G20780.1
intron # 9
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|6071740|gb|AW101127.1|AW101127
EST:     CACTGAATAAAGGTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: CACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|10845490|gb|BF071116.1|BF071116
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|17518725|gb|BM187767.1|BM187767
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|192324906|gb|FK016092.1|FK016092
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|5688475|gb|AI941490.1|AI941490
EST:     CCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGCTCCTGCC                         ATATATGGACTACGTTTTTGTTAATGAGACTGAAGCAAGAACATTTTCTA
genomic: CCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAG-TTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTA
EST: gi|6502176|gb|AW203549.1|AW203549
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|9440259|gb|BE440768.1|BE440768
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|151405346|gb|EV275160.1|EV275160
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACT
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACT
EST: gi|209697661|gb|BW655508.1|BW655508
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|151404672|gb|EV274486.1|EV274486
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTT-GGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|9902652|gb|BE611559.1|BE611559
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|151405163|gb|EV274977.1|EV274977
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|10232664|gb|BE801552.1|BE801552
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|21602656|gb|BQ612987.1|BQ612987
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|208146805|gb|GD945844.1|GD945844
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTT-GGTAATGAGACTGAAGCAAGA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGA
EST: gi|15287897|gb|BI471788.1|BI471788
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|308098710|gb|HO760451.1|HO760451
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
EST: gi|15199748|gb|BI423990.1|BI423990
EST:     GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCC                         ATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA
genomic: GCCCCATTTATCTGTGAGTTCTTCAAGGATGCACTGAATAAAGTTCTGCCgtaaggatcc ... tgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaagaaagaaaattttacatattgatcttaataatgtccattttgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAAAGCTCAAGGCTGGGAG
                           tcttaat  putative branch site (score: 3)
                                      tccatttt  putative PPT
      aaagaaaattttacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggatccttctctgttaaattcaaagaaagaaaattttacatattgatcttaataatgtccattttgggattcagATATATGGACTACGTTTTTGGTAATGAGACTGAAGCAAGAACATTTTCTAAAGCTCAAGGCTGGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA