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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttcacgtccttcctttcgcttgttttttcccgggaaaattgccgaatctgtcatccaaacaattacgtttgttgctttattgaaacagagcctttgtAGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCAGCCGAGTGTTCAGGAAAGGTAAAGAGCAAAGTCAAACAAATGCAGTCGCA

Basic information

species Vitis vinifera
transcript Vv09s0002g02750.t01
intron # 1
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|18459455|gb|BM437733.1|BM437733
EST:     TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAGAGCCTTTGT                         AGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCA
genomic: TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAG-G----TCTgtaagtaaca ... gagcctttgtAGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCA
EST: gi|30252607|gb|CB970158.1|CB970158
EST:     TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAGAGCCTTTGT                         AGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCA
genomic: TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAG-G----TCTgtaagtaaca ... gagcctttgtAGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCA
EST: gi|110687799|gb|EE065623.1|EE065623
EST:     TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAGGTCTAGCCTTTGT                 
genomic: TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAGG--T---C----Tgtaagtaaca ... ga
EST: gi|110702629|gb|EE078765.1|EE078765
EST:     TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAGAGCCTTTGT                         AGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCA
genomic: TTCAATTCCAATTCCTCTCGTTGCCACGCTGCAG-G----TCTgtaagtaaca ... gagcctttgtAGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgaatctgtcatccaaacaattacgtttgttgctttattgaaacagagcctttgtAGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCAGCCGAGTGTTCAGGAAAGGTAAAGAGCAAAGTCAAACAAATGCAGTCGCA
                                                cctttgt  CT-rich tract
                                 tttattgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttcacgtccttcctttcgcttgttttttcccgggaaaattgccgaatctgtcatccaaacaattacgtttgttgctttattgaaacagagcctttgtAGTTGTAAGGAATTTCTGAGGGGTGGTCGGTGATCGGTCAAAAATGTTCAGCCGAGTGTTCAGGAAAGGTAAAGAGCAAAGTCAAACAAATGCAGTCGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - ccttcct
- - - - - - - - - - - - - - - - - -ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - ctgtcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaca