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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccactcgagccaggcctcaaggggtgttatttttgccatattcatgttttgaggcaactaatttggtgattttgattttcttttcggtttttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAAGCCTTCTCTGAGGTTGTAATTCCATCAACAGGTTAAAACTTCTAATCAT

Basic information

species Vitis vinifera
transcript Vv09s0002g02750.t01
intron # 7
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|32245051|gb|CD710870.1|CD710870
EST:     TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
EST: gi|30252684|gb|CB970235.1|CB970235
EST:     TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
EST: gi|32457133|gb|CD798307.1|CD798307
EST:     TGAGGATGATGAGCTCGCTGCATTACGGGCAGAATTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
EST: gi|110726760|gb|EE102823.1|EE102823
EST:     TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTAACTAGA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTA-CTAGA
EST: gi|30297055|gb|CB973849.1|CB973849
EST:     GATGAGCTCGCTGCATTACAGGCAGAGTTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
genomic: GATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
EST: gi|110702629|gb|EE078765.1|EE078765
EST:     TGATGATGATGAGCTCGCTGCATTACAAGCAGAATTGGCACTTTAAAGAC                         GTTCCTTTCATGGAGTAAAAGTGA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGA
EST: gi|30297117|gb|CB973911.1|CB973911
EST:     TGAGGATGATGAGCTCGCTGCATTACAGGCAGAGTTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACAATTACTAGAA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
EST: gi|110715669|gb|EE093982.1|EE093982
EST:     TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
EST: gi|32245304|gb|CD711123.1|CD711123
EST:     TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAG                         GTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA
genomic: TGAGGATGATGAGCTCGCTGCATTACAGGCAGAATTGGCACTTTAAAGAGgtaattcttt ... ttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgaggcaactaatttggtgattttgattttcttttcggtttttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAAGCCTTCTCTGAGGTTGTAATTCCATCAACAGGTTAAAACTTCTAATCAT
                        ttttgattttcttttc  CT-rich tract
                       attttgattttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccactcgagccaggcctcaaggggtgttatttttgccatattcatgttttgaggcaactaatttggtgattttgattttcttttcggtttttttccacagGTTCCTTTCATGGAGTAAAGGTGACAACATCAAGATTAACCATTACTAGAAGCCTTCTCTGAGGTTGTAATTCCATCAACAGGTTAAAACTTCTAATCAT

ccactcg
- - - - - - -gcctcaa
- - - - - - - - - - -gggtgtt
- - - - - - - - - - - - - - - - ttgccat
- - - - - - - - - - - - - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcaacta