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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcctctgttttctcggctaccaaacaggggatttacgtgaactttttttgcagtaaaattttgtttttttcttcatcctttcgaatttctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAATTATCAATTCTTGAGAAGAACACAGATCTGATCTGGAAATGGCGGAAGAA

Basic information

species Vitis vinifera
transcript Vv08s0007g03530.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|71871898|gb|DT020953.1|DT020953
EST:     TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|37184292|gb|CF603646.1|CF603646
EST:     ATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: ATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110697318|gb|EE074199.1|EE074199
EST:     TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|37188114|gb|CF607465.1|CF607465
EST:     GATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: GATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110685635|gb|EE062527.1|EE062527
EST:     TCTTTTCTCCGCTGTGCGATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110729956|gb|EE106488.1|EE106488
EST:     TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCCTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|30137912|gb|CB923250.1|CB923250
EST:     GATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: GATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|37185623|gb|CF604976.1|CF604976
EST:     ATTCTTC-AACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: ATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110378379|gb|EC943509.1|EC943509
EST:     GCTGTGCGATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: GCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|71877385|gb|DT026440.1|DT026440
EST:     CTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: CTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|71871782|gb|DT020837.1|DT020837
EST:     TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TTCTTGTTCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110695170|gb|EE072883.1|EE072883
EST:     ATTCTTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: ATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110726370|gb|EE102090.1|EE102090
EST:     TCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCCTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TCTTCTTTTCTTCGCTGTGCGATTCTTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
EST: gi|110411612|gb|EC977333.1|EC977333
EST:     TTCTAACCCTTTCTTCAG                         ATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT
genomic: TTCTAACCCTTTCTTCAGgtacaatttt ... ctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttgcagtaaaattttgtttttttcttcatcctttcgaatttctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAATTATCAATTCTTGAGAAGAACACAGATCTGATCTGGAAATGGCGGAAGAA
               ttttgtttttttcttc  CT-rich tract
          taaaattttgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcctctgttttctcggctaccaaacaggggatttacgtgaactttttttgcagtaaaattttgtttttttcttcatcctttcgaatttctttttgcagATCGACGATCCTGTTGTTCCTCGGATAGATCTGCTACTTCTTTTTCGAAATTATCAATTCTTGAGAAGAACACAGATCTGATCTGGAAATGGCGGAAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
tgtcctc
- - - - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -agtaaaa