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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcaagaattttttgtgtgtttgtttgttttttactgtatgattatcttcagggttttcatccatcttatattgttttgtattttgtgtgtgtatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAAGCTATCCA

Basic information

species Vitis vinifera
transcript Vv07s0031g03090.t01
intron # 2
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|30133769|gb|CB919108.1|CB919108
EST:     GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAG                         AAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
EST: gi|351036166|gb|FQ464011.1|FQ464011
EST:     GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAG                         AAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
EST: gi|161716956|gb|FC068141.1|FC068141
EST:     GTACATCAAAAAAG                         AAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
EST: gi|110719627|gb|EE094919.1|EE094919
EST:     GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCNNNNNNN                         NNGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
EST: gi|351044383|gb|FQ452935.1|FQ452935
EST:     GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAG                         AAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
EST: gi|351045775|gb|FQ440960.1|FQ440960
EST:     GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAG                         AAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
EST: gi|161709635|gb|FC058015.1|FC058015
EST:     GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAG                         AAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA
genomic: GACATGAACAAGAATTACAAATCATTTCTGAGGACTGTACATCAAAAAAGgtattcaaga ... tatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagggttttcatccatcttatattgttttgtattttgtgtgtgtatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAAGCTATCCA
                atcttatattgttttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattcaagaattttttgtgtgtttgtttgttttttactgtatgattatcttcagggttttcatccatcttatattgttttgtattttgtgtgtgtatgattcagAAGGTTGGGCAGGATAAGGATGTTATGGGAGAGGTTTACAAGACCCATGAAGCTATCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC