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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttgtgccctcaagtttcttctctgtctcttaaacattttttatagttgatctatttcctaaagtatcttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAAAATGACACAG

Basic information

species Vitis vinifera
transcript Vv07s0151g00350.t01
intron # 12
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|351053929|gb|FQ441695.1|FQ441695
EST:     CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
EST: gi|351036041|gb|FQ463886.1|FQ463886
EST:     CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCAGATC-ATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
EST: gi|352794210|gb|FQ479452.1|FQ479452
EST:     CACTACGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
EST: gi|351046353|gb|FQ452969.1|FQ452969
EST:     CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
EST: gi|352794331|gb|FQ481562.1|FQ481562
EST:     CACTAAGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
EST: gi|352794414|gb|FQ481645.1|FQ481645
EST:     CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTTCAT                         GTGGGCAAGTGGGTTC
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTC
EST: gi|110729354|gb|EE105534.1|EE105534
EST:     CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA
EST: gi|349807444|gb|FQ401401.1|FQ401401
EST:     CACTANGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCAT                         GTGGGCAAGTGGGTTCCTCATCCACTCCCCGATCCATTTCAGATGAAGCAA
genomic: CACTAGGGAGGCCAACTGCAGAGCAAGCACTCAAACATCCATTTTTCCATgtaattttgt ... ttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtctcttaaacattttttatagttgatctatttcctaaagtatcttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAAAATGACACAG
                                 tcctaaa  putative branch site (score: 2)
                                           tcttatc  putative PPT
      ttaaacattttttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattttgtgccctcaagtttcttctctgtctcttaaacattttttatagttgatctatttcctaaagtatcttatcaatagGTGGGCAAGTGGGTTCCTCATCCACTCCCAGATCCATTTCAGATGAAGCAAAATGACACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA