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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaagatgtatagctggaaaaaaaatttcagctttttttatttttgatggatctcatattcttttgacgttgtcatttcacctggtgattaacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG

Basic information

species Vitis vinifera
transcript Vv19s0015g01390.t01
intron # 17
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|71883475|gb|DT032530.1|DT032530
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
EST: gi|71874496|gb|DT023551.1|DT023551
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
EST: gi|77588863|gb|DV223674.1|DV223674
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
EST: gi|77589633|gb|DV224104.1|DV224104
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
EST: gi|33403116|gb|CF208743.1|CF208743
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
EST: gi|71886269|gb|DT035324.1|DT035324
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
EST: gi|77588931|gb|DV223714.1|DV223714
EST:     GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAG                         GCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
genomic: GACATTTCTGGTCGTCATATCCAATTACAACTACATATCTTTATACTAAGgtaaatgctg ... taacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatggatctcatattcttttgacgttgtcatttcacctggtgattaacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG
                                          gattaac  putative branch site (score: 2)
           atattctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaaagatgtatagctggaaaaaaaatttcagctttttttatttttgatggatctcatattcttttgacgttgtcatttcacctggtgattaacttgcagGCAAGCAGGCTAAAAGATGCCATGTCTCAAATTTATCCAAAGCTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - -tagctgg
- - - - - - - - - aaaaaaa
- - - - - - - - - - - - - -ttcagct
- - - - - - - - - - - - - - - - - - - - - - -tgatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctggtga