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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattttatttatatctgtaatgaatttacacaaagataatacatatgtcaagcataggaatataaatcggtagttaatggtgtaacctgtaatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAGCTCTATTTCTCAAGCTGGATCATCAGGGCTG

Basic information

species Vitis vinifera
transcript Vv05s0020g04870.t01
intron # 4
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|110685139|gb|EE063222.1|EE063222
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|30252882|gb|CB970433.1|CB970433
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|110386894|gb|EC951526.1|EC951526
EST:     GGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: GGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|32271923|gb|CD721082.1|CD721082
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|30327353|gb|CD010615.1|CD010615
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|110378113|gb|EC943229.1|EC943229
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|110384349|gb|EC948779.1|EC948779
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|32249475|gb|CD715294.1|CD715294
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|161718153|gb|FC065659.1|FC065659
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|110361567|gb|EC925049.1|EC925049
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|32248982|gb|CD714801.1|CD714801
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|161719072|gb|FC065699.1|FC065699
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|30324249|gb|CD007511.1|CD007511
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|71855922|gb|DT004977.1|DT004977
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|30325801|gb|CD009063.1|CD009063
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAACACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|33409613|gb|CF215240.1|CF215240
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|27583867|gb|CB006562.1|CB006562
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
EST: gi|110398278|gb|EC964527.1|EC964527
EST:     TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAG                         GGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG
genomic: TTGGTCGAAGAATTTGGGAGGCTGGGAAGACATATTATTGTGTGACAAAGgtatgggtta ... aatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcaagcataggaatataaatcggtagttaatggtgtaacctgtaatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAGCTCTATTTCTCAAGCTGGATCATCAGGGCTG
                                  gtgtaac  putative branch site (score: 3)
        ataggaatataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattttatttatatctgtaatgaatttacacaaagataatacatatgtcaagcataggaatataaatcggtagttaatggtgtaacctgtaatattgcagGGGGTGCCATATCCAGGGTTGCCCAAGCGTGACAAACCACGGCGTGTGGAGCTCTATTTCTCAAGCTGGATCATCAGGGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - -acaaaga
- - - - - - - - - - - - - - - - - - - - - - - -tcaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aggaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgta