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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcttatatatatttttactaaaaacttgatgtttcatggctgatcctttgtttccttttttgattatgggaacttatttcgtgcttcttaatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCGCAGGGAGAAAAG

Basic information

species Vitis vinifera
transcript Vv08s0007g02270.t01
intron # 6
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|71873418|gb|DT022473.1|DT022473
EST:     GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAG                         GAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
genomic: GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAGgtatatttta ... aatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
EST: gi|30254542|gb|CB971287.1|CB971287
EST:     GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAG                         GAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
genomic: GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAGgtatatttta ... aatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
EST: gi|294965055|gb|GW838858.1|GW838858
EST:     TGGTTCCAAGGTGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAG                         GAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
genomic: TGGTTCCAAGG-GTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAGgtatatttta ... aatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
EST: gi|161706925|gb|FC056806.1|FC056806
EST:     GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAG                         GAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
genomic: GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAGgtatatttta ... aatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
EST: gi|110361016|gb|EC924466.1|EC924466
EST:     GTGGTCCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAG                         GAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG
genomic: GTGGTTCCAAGGGTAGAAAGTGGCGTAAAAATGTGAAGGCAGTAGAGAAGgtatatttta ... aatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctttgtttccttttttgattatgggaacttatttcgtgcttcttaatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCGCAGGGAGAAAAG
                                         tcttaat  putative branch site (score: 3)
                                       cttcttaatctttc  CT-rich tract
           ttttttgattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcttatatatatttttactaaaaacttgatgtttcatggctgatcctttgtttccttttttgattatgggaacttatttcgtgcttcttaatctttcagGAGTTGCTTCAGTTGGAAGATGATGTAAAGGCTTTAGAAGAGATGTACCCGCAGGGAGAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - -taaaaac
- - - - - - - - - - - - - - - - -ttcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcgtgc