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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGAGAGAGACCCAACACCATTGCACAGAGCAGCACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgtagaacttcctgtatgatatatttgattgttatacatttctatttggccggaaaatctcaaatggtggtctttaaacctattgaacacttt...

Basic information

species Vitis vinifera
transcript Vv11s0065g00640.t01
intron # 18
splice site 5'
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|32265187|gb|CD716776.1|CD716776
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|18458985|gb|BM437263.1|BM437263
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|161717232|gb|FC067238.1|FC067238
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACATGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|30299701|gb|CB976495.1|CB976495
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCCCAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|110391126|gb|EC956083.1|EC956083
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|32270024|gb|CD719183.1|CD719183
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|34543141|gb|CF511373.1|CF511373
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|30320591|gb|CD003853.1|CD003853
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|352785395|gb|FQ477609.1|FQ477609
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
EST: gi|34543224|gb|CF511456.1|CF511456
EST:     CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAG                         GAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC
genomic: CACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgt ... ttgattgcagGAGATCATGGGGGTCTTCAATAGGAACTGTATGATCACTTATGCTGCATAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGAGAGAGACCCAACACCATTGCACAGAGCAGCACGAGTATTGATAAATTCCCAAATGGAGAATGGAGATTTTCCACAGGAGgtaatcctgtagaacttcctgtatgatatatttgattgttatacatttctatttggccggaaaatctcaaatggtggtctttaaacctattgaacacttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cggaaaa