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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caattgtacccttgtaagctggacaaagtgaggaatattctgaattaatgatctacttcgcaagtccttaactgactttttacttatttctttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAGCTTCCTTATTCATATTATTCACTTCCCTATTGTGCCCCATCAAAAATAC

Basic information

species Glycine max
transcript GLYMA04G06420.1
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|209712505|gb|BW653688.1|BW653688
EST:     GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAG                         GGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
genomic: GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAGgtaacccttc ... tttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
EST: gi|213610853|gb|DB963183.1|DB963183
EST:     GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAG                         GGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
genomic: GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAGgtaacccttc ... tttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
EST: gi|213608468|gb|DB972684.1|DB972684
EST:     GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAG                         GGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
genomic: GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAGgtaacccttc ... tttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
EST: gi|209727150|gb|BW655215.1|BW655215
EST:     GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAG                         GGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG
genomic: GCTCTCACTGCTTCTACCTCCCCGGCGTCGCTCCACAGGATTTCCAGAAGgtaacccttc ... tttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgatctacttcgcaagtccttaactgactttttacttatttctttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAGCTTCCTTATTCATATTATTCACTTCCCTATTGTGCCCCATCAAAAATAC
                        aactgac  putative branch site (score: 2)
                              ctttttacttatttct  CT-rich tract
                               tttttacttatttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caattgtacccttgtaagctggacaaagtgaggaatattctgaattaatgatctacttcgcaagtccttaactgactttttacttatttctttgctgcagGGAGATTCATTGCAAGTGAAAGTAAATAAATTAACATCAACGAAGACCCAGCTTCCTTATTCATATTATTCACTTCCCTATTGTGCCCCATCAAAAATAC

- - - - - - tgtaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - ctacttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttaac