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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatgttggtggatcttatgagaacaatttcttgctatcttttttcctggtgggttatttcataacagaagattctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTCAGGCAAGAGATGCTGGCTCAACTGCCTCAACTGCTGTGCTCGTTGGTGA

Basic information

species Vitis vinifera
transcript Vv18s0001g15050.t01
intron # 3
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|110712077|gb|EE089286.1|EE089286
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351030454|gb|FQ432392.1|FQ432392
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351048563|gb|FQ448837.1|FQ448837
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|349815543|gb|FQ400699.1|FQ400699
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|161716302|gb|FC064648.1|FC064648
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351023467|gb|FQ432850.1|FQ432850
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351029448|gb|FQ436842.1|FQ436842
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|349817905|gb|FQ407894.1|FQ407894
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|352791261|gb|FQ474951.1|FQ474951
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351044250|gb|FQ447604.1|FQ447604
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|349832452|gb|FQ421013.1|FQ421013
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|27584677|gb|CB007372.1|CB007372
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|349815027|gb|FQ410250.1|FQ410250
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351025872|gb|FQ427884.1|FQ427884
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351025088|gb|FQ433505.1|FQ433505
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351012826|gb|FQ430389.1|FQ430389
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351030991|gb|FQ439027.1|FQ439027
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|161717197|gb|FC066571.1|FC066571
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|349830246|gb|FQ420506.1|FQ420506
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGGGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351036088|gb|FQ463933.1|FQ463933
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|110711257|gb|EE087557.1|EE087557
EST:     GAATTTAAGCAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|161719283|gb|FC064823.1|FC064823
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|71858998|gb|DT008053.1|DT008053
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351033310|gb|FQ446542.1|FQ446542
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|71855048|gb|DT004103.1|DT004103
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351021784|gb|FQ437169.1|FQ437169
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAAACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|351046056|gb|FQ441439.1|FQ441439
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAGAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
EST: gi|161715035|gb|FC063620.1|FC063620
EST:     GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTG                         CTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC
genomic: GAATTTAAGTAGCCACCCAGATTTCATCAAAGATACAAAGTCAGCCATTGgtatgatgtt ... tctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttgctatcttttttcctggtgggttatttcataacagaagattctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTCAGGCAAGAGATGCTGGCTCAACTGCCTCAACTGCTGTGCTCGTTGGTGA
                               tcataac  putative branch site (score: 2)
                                            ttctatt  putative PPT
                          ttatttcataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatgttggtggatcttatgagaacaatttcttgctatcttttttcctggtgggttatttcataacagaagattctattgcagCTGAAGTATTTAGAAAGACTGATGCTGATTATCTCAATGAAGAGAAAGGTCAGGCAAGAGATGCTGGCTCAACTGCCTCAACTGCTGTGCTCGTTGGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG