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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgtcaagtggtaacttattgaaggtttgacttcacattgctttatctgagctgattggttaatggtcaaatttccaagactaacattcgttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG

Basic information

species Vitis vinifera
transcript Vv04s0023g01800.t01
intron # 6
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|110421805|gb|EC988106.1|EC988106
EST:     TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAG                         GTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
genomic: TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAGgtgcaatttt ... gttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
EST: gi|30320677|gb|CD003939.1|CD003939
EST:     TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAG                         GTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
genomic: TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAGgtgcaatttt ... gttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
EST: gi|18459211|gb|BM437489.1|BM437489
EST:     TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAG                         GTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
genomic: TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAGgtgcaatttt ... gttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
EST: gi|30321195|gb|CD004457.1|CD004457
EST:     TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAG                         GTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
genomic: TAACCAACCTTAAGACGGGAACCAGAAAAGGAGGATGGGAAAGAGCAGAGgtgcaatttt ... gttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgagctgattggttaatggtcaaatttccaagactaacattcgttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG
                                  gactaac  putative branch site (score: 1)
                                              ttgtttc  putative PPT
                      tcaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatgtcaagtggtaacttattgaaggtttgacttcacattgctttatctgagctgattggttaatggtcaaatttccaagactaacattcgttgtttcagGTTTATTTTTATGACATTCCAGACGAAGTCATTGATAACATG

- - - - - - - - - - - - - - - -cttcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaagac