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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cctgaagtagggaagaactgttagaagtataattatattttacgttgaatgattcttcactgcagaaataagtttctaactatgtgttcatctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAAGTTTGTTGTACAGCTAACTGAGACTAGTATGAGCGCCCTCTCTCTTTAC

Basic information

species Vitis vinifera
transcript Vv13s0019g02000.t01
intron # 8
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|32459731|gb|CD800905.1|CD800905
EST:     TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAG                         AAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
genomic: TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
EST: gi|34363480|gb|CF405065.1|CF405065
EST:     TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAG                         AAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
genomic: TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
EST: gi|110700862|gb|EE077890.1|EE077890
EST:     TTATGGGAAGCATATAGTTGCGCGTGTANAGAAACTTGTGGCAGCTGGAG                         AAAGGANGATTGGTGTTCAGTCTTCACTTCCCGCTTANATTTCATANGAAA
genomic: TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
EST: gi|30126410|gb|CB911749.1|CB911749
EST:     TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAG                         AAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
genomic: TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
EST: gi|30131767|gb|CB917106.1|CB917106
EST:     TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAG                         AAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
genomic: TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
EST: gi|30301304|gb|CB978098.1|CB978098
EST:     TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAG                         AAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
genomic: TTATGGGAAGCATATAGTTGCGCGTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
EST: gi|32457761|gb|CD798935.1|CD798935
EST:     ATGGGAAGCATATAGTTGCGCGTGTGTAGAGAAACTTGTGGCAGCTGGAG                         AAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA
genomic: ATGGGAAGCATATAGTTGCGC--GTGTAGAGAAACTTGTGGCAGCTGGAGgtactaattc ... tctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatgattcttcactgcagaaataagtttctaactatgtgttcatctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAAGTTTGTTGTACAGCTAACTGAGACTAGTATGAGCGCCCTCTCTCTTTAC
                            ttctaac  putative branch site (score: 1)
                                         ttcatctctt  putative PPT
                    aaataagtttctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cctgaagtagggaagaactgttagaagtataattatattttacgttgaatgattcttcactgcagaaataagtttctaactatgtgttcatctcttgcagAAAGGAGGATTGGTGTTCAGTCTTCACTTCCCGCTTAGATTTCATAGGAAAGTTTGTTGTACAGCTAACTGAGACTAGTATGAGCGCCCTCTCTCTTTAC

cctgaag
- - - - - ggaagaa
- - - - - - - - -ctgttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgttc