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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcttattattttttttataagaataaaatcaagcaattagaaaaataagtgcttaatttccttatcaaaacccataatttatttatgttatgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGCTGCCTTACAAATATGCATGGACAAAG

Basic information

species Vitis vinifera
transcript Vv03s0088g00260.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|161712339|gb|FC061664.1|FC061664
EST:     CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCG                         GTCCAATGGAGTTTGATATCCATAACTACCCAGGAGGGTTACCAAGATTGC
genomic: CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCGgtatactttt ... atgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
EST: gi|161715672|gb|FC066805.1|FC066805
EST:     CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCG                         GTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
genomic: CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCGgtatactttt ... atgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
EST: gi|349829592|gb|FQ421110.1|FQ421110
EST:     CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCG                         GTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
genomic: CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCGgtatactttt ... atgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
EST: gi|351026980|gb|FQ436633.1|FQ436633
EST:     CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACAAAATCG                         GTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
genomic: CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCGgtatactttt ... atgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
EST: gi|351013477|gb|FQ425508.1|FQ425508
EST:     CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCG                         GTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC
genomic: CACTGGAGGCCCCGGTTGTTCTTCTTTCAATGGACTCATTTACGAAATCGgtatactttt ... atgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataagtgcttaatttccttatcaaaacccataatttatttatgttatgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGCTGCCTTACAAATATGCATGGACAAAG
      gcttaat  putative branch site (score: 4)
                             ataatttatttatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcttattattttttttataagaataaaatcaagcaattagaaaaataagtgcttaatttccttatcaaaacccataatttatttatgttatgaatgtagGTCCAATGGAGTTTGATATCCACAACTACCCAGGAGGGTTACCAAGATTGCTGCCTTACAAATATGCATGGACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - -tcaagca
- - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaccca