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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacatcccatatgctgttgtcctttctatttctgttgattgttgtagtcttgattgtataaataagcagcatagcttattaattccttttgtgtttacagGTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAGCG

Basic information

species Vitis vinifera
transcript Vv17s0000g07780.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|71862869|gb|DT011924.1|DT011924
EST:     CGGTCCAGCATTTGATGGAGCCGATTCTGGAGCCTTTGATTCGTAAAGTG                         GTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAG
genomic: CGGTCCAGCATTTGATGGAGCCGATTCTGGAGCCTTTGATTCGTAAAGTGgtaagtggat ... gtgtttacagGTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAG
EST: gi|161711826|gb|FC058746.1|FC058746
EST:     AGCATTTGATGGAGCCGATTCTGGAGCCTTTGATTCGTAAAGTG                         GTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAG
genomic: AGCATTTGATGGAGCCGATTCTGGAGCCTTTGATTCGTAAAGTGgtaagtggat ... gtgtttacagGTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAG
EST: gi|29783947|gb|CB344097.2|CB344097
EST:     CGGTCCAGCATTTGATGGAGCCGATTCTGGAGCCTTTGATTCGTAAAGTG                         GTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAG
genomic: CGGTCCAGCATTTGATGGAGCCGATTCTGGAGCCTTTGATTCGTAAAGTGgtaagtggat ... gtgtttacagGTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcttgattgtataaataagcagcatagcttattaattccttttgtgtttacagGTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAGCG
                               tattaat  putative branch site (score: 2)
                                     ttccttttgtgttt  CT-rich tract
     tgattgtataaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gacatcccatatgctgttgtcctttctatttctgttgattgttgtagtcttgattgtataaataagcagcatagcttattaattccttttgtgtttacagGTAAAAGAGGAAGTTGAAACGGCTCTGAGAAAGCATTTAAGCAATATGAAGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- catccca
- - - - -tatgctg
- - - - - - - - - -tcctttc
- - - - - - - - - - - - - - - -ctgttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catagct