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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaatagtcttggtagggtattaatgacacatcattttattgattttaatccacacaggccattttacccatttagatgatgtcttcttttgttttgcagGGAGAAC

Basic information

species Vitis vinifera
transcript Vv11s0065g00480.t01
intron # 3
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|110396623|gb|EC962315.1|EC962315
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|71873337|gb|DT022392.1|DT022392
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|110380311|gb|EC945566.1|EC945566
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|110421110|gb|EC987398.1|EC987398
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|110390962|gb|EC955912.1|EC955912
EST:     GGAAGAACTGCACCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|110428276|gb|EC994743.1|EC994743
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|110392562|gb|EC958071.1|EC958071
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC
EST: gi|110414808|gb|EC980666.1|EC980666
EST:     GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAG                         GGAGAA-
genomic: GGAAGAACTGCGCCAATTGTCTGATGATACAAACACATACAAGTCTATAGgtatgtaaat ... tgttttgcagGGAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatccacacaggccattttacccatttagatgatgtcttcttttgttttgcagGGAGAAC
 ttttaat  putative branch site (score: 3)
                                   tgtcttcttttgtttt  putative PPT
                                          ttttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgaatagtcttggtagggtattaatgacacatcattttattgattttaatccacacaggccattttacccatttagatgatgtcttcttttgttttgcagGGAGAAC

- - - - - -ggtaggg
- - - - - - - - - - - - - acacatc
- - - - - - - - - - - - - - - - - - - - - - - - - ccacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acccatt