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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatgaatgttcagagatatattgggaatagttgttgcataatgttttcttcctcgcccactttcttttgtgattccaatcttgaatatgctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGCGTTGAGACAAGTTTGCTTCTACAACATAGAGCAAAG

Basic information

species Vitis vinifera
transcript Vv13s0106g00790.t01
intron # 5
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|110726861|gb|EE103015.1|EE103015
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
EST: gi|110685079|gb|EE063090.1|EE063090
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
EST: gi|110691343|gb|EE069333.1|EE069333
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
EST: gi|110730337|gb|EE107301.1|EE107301
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACNAGTAGCACCTCAGGAATGCGTGATAAC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
EST: gi|110698656|gb|EE076402.1|EE076402
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
EST: gi|110698854|gb|EE076824.1|EE076824
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
EST: gi|110698365|gb|EE075791.1|EE075791
EST:     AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTG                         GTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC
genomic: AACTTCAAGATGAGAAGCACTGGGATGAACTTGTTATTATTATTGCCGTGgtatgtccct ... ctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttcctcgcccactttcttttgtgattccaatcttgaatatgctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGCGTTGAGACAAGTTTGCTTCTACAACATAGAGCAAAG
                                           tgctgat  putative branch site (score: 3)
                tttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctatgaatgttcagagatatattgggaatagttgttgcataatgttttcttcctcgcccactttcttttgtgattccaatcttgaatatgctgattccagGTAAGTTCACGGCAGAAGGAAACAAGTAGCACCTCAGGAATGCGTGATAGCGTTGAGACAAGTTTGCTTCTACAACATAGAGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
ctatgaa
- - - - - - - - - - - - - - - - tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaatct