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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggttggcactttgccgttgattttttattgatgtaattgctggtgtggaagcacgaaactccttatcaattatttatttgggggcttttggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATACAATCTTCTTCAAGGAGGAA

Basic information

species Vitis vinifera
transcript Vv11s0016g03460.t01
intron # 2
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|71861603|gb|DT010658.1|DT010658
EST:     CTACGCACGTCGATACGTTTGAGATCGCAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71859743|gb|DT008798.1|DT008798
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71857582|gb|DT006637.1|DT006637
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71859339|gb|DT008394.1|DT008394
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71864348|gb|DT013403.1|DT013403
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAGGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71859319|gb|DT008374.1|DT008374
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71864880|gb|DT013935.1|DT013935
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|32250210|gb|CD716029.1|CD716029
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71858976|gb|DT008031.1|DT008031
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71863788|gb|DT012843.1|DT012843
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|294965830|gb|GW837313.1|GW837313
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|110702369|gb|EE081005.1|EE081005
EST:     CTACGAACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|352781444|gb|FQ468288.1|FQ468288
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71855998|gb|DT005053.1|DT005053
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|71861658|gb|DT010713.1|DT010713
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|27580104|gb|CB002799.1|CB002799
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|352768395|gb|FQ469571.1|FQ469571
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
EST: gi|110710321|gb|EE086552.1|EE086552
EST:     CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATT                         GAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC
genomic: CTACGCACGTCGATACGTTTGAGATCGTAGCTGTGAAGATTgtgagtctca ... tggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtggaagcacgaaactccttatcaattatttatttgggggcttttggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATACAATCTTCTTCAAGGAGGAA
                                         ctttt  CT-rich tract
                   ttatcaattatttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttggttggcactttgccgttgattttttattgatgtaattgctggtgtggaagcacgaaactccttatcaattatttatttgggggcttttggttcacagGAGAACAGTAAGACAAAGCATCCACAACTGCTTTATGAAGCAAAGTTATACAATCTTCTTCAAGGAGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
-tggttgg
- - - - - - - - - - - - - - - - - - - - - -ggtgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - gcacgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggggg