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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattctctgtcacaggcagcaaatgcaacccgattgaactgcaaaaccgattacatcttgcaattagcttatcatgaattcacacactgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGACAAGAGGAGTTCCAGAAAGACCCTGCCCCCATGTCCAACACGAACACAG

Basic information

species Vitis vinifera
transcript Vv02s0025g03400.t01
intron # 13
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|110358368|gb|EC922530.1|EC922530
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACTTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|71882067|gb|DT031122.1|DT031122
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACTTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|30129909|gb|CB915248.1|CB915248
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|71885798|gb|DT034853.1|DT034853
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACTTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|32245741|gb|CD711560.1|CD711560
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTAG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|110362845|gb|EC926402.1|EC926402
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACTTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|110421268|gb|EC987564.1|EC987564
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTACCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|110418598|gb|EC984758.1|EC984758
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTACCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|32246367|gb|CD712186.1|CD712186
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTAG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA
EST: gi|110687575|gb|EE065143.1|EE065143
EST:     GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGG                         GAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACTTATGGA
genomic: GGATGGGCATGGCCAACCGGCACTCCTATACATCGTGCCATTCACACTGGgtaattctct ... actgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaaaaccgattacatcttgcaattagcttatcatgaattcacacactgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGACAAGAGGAGTTCCAGAAAGACCCTGCCCCCATGTCCAACACGAACACAG
                                            cactgat  putative branch site (score: 3)
         attacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattctctgtcacaggcagcaaatgcaacccgattgaactgcaaaaccgattacatcttgcaattagcttatcatgaattcacacactgatgcagGAACCTTTTTGACACTGGGGAGGAAGAGAGGCGATCTCAAGAACCTATGGACAAGAGGAGTTCCAGAAAGACCCTGCCCCCATGTCCAACACGAACACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG