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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattctgtttgcagttcttattacatatatttagtctgaaacaaccaagaaaaaaaaactagtttaaaacaaaagaaacactatgaaaccctaggagcaatttttcagttgcttataatgtgaatcttttttgacttcaaaatttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGGGGTTATTGAGCCTGCAATGAGCAAAGTGAAGATCCTACAG

Basic information

species Vitis vinifera
transcript Vv15s0021g02230.t01
intron # 15
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|110699451|gb|EE076471.1|EE076471
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|110702474|gb|EE081230.1|EE081230
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|26264285|gb|CA815348.1|CA815348
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTTTCAAG                         CATGGGACTGGATCTTTTAGAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|110732035|gb|EE106967.1|EE106967
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|110701345|gb|EE078813.1|EE078813
EST:     GCTTACCACCATACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|351017726|gb|FQ436079.1|FQ436079
EST:     GCTTACCACCACACTGCCCAAATGAAGGCAGATAAGAACCATCTCTCAGG                         CATGGGACTGGATCTTT
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTT
EST: gi|34545337|gb|CF513569.1|CF513569
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|34545258|gb|CF513490.1|CF513490
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|32272417|gb|CD721576.1|CD721576
EST:     GCTTACCACCACACTGCCCAAATGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|110688105|gb|EE066273.1|EE066273
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGGAATAACCTANAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|351026359|gb|FQ428371.1|FQ428371
EST:     GCTTACCACCACACTGCCCAAATGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|30138039|gb|CB923377.1|CB923377
EST:     GCTTACCACCACACTGCCCAAATGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|110371042|gb|EC934755.1|EC934755
EST:     GCTTACCACCACACTGCCCAAATGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|161712591|gb|FC062193.1|FC062193
EST:     GCTTACCACCACACTGCCCAAATGAAGGCATATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|26266195|gb|CA817258.1|CA817258
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTTTCAAG                         CATGGGACTGGATCTTTTAGAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
EST: gi|110362101|gb|EC925611.1|EC925611
EST:     GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAG                         CATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG
genomic: GCTTACCACCACACTGCCCAAACGAAGGCAGATAAGAAGCATCTCTCAAGgtattctgtt ... atttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaatttttcagttgcttataatgtgaatcttttttgacttcaaaatttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGGGGTTATTGAGCCTGCAATGAGCAAAGTGAAGATCCTACAG
                                ttttgac  putative branch site (score: 3)
                                              tttttgc  putative PPT
                              ttttttgacttcaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattctgtttgcagttcttattacatatatttagtctgaaacaaccaagaaaaaaaaactagtttaaaacaaaagaaacactatgaaaccctaggagcaatttttcagttgcttataatgtgaatcttttttgacttcaaaatttttgcagCATGGGACTGGATCTTTTAAAAGGAACTGTCCGTAATAACCTAGAAGCTGGGGTTATTGAGCCTGCAATGAGCAAAGTGAAGATCCTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA