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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcatgagcctaatcagcaatataatcgtgccttcagtcctagttttcacgggcataaggttaatgtgcttggttgtattgctttgaaatctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTACTTGGAAGCGTCGCCATGGATATGATCGTGTAAATGATGATGAAGATAT

Basic information

species Vitis vinifera
transcript Vv15s0048g02730.t01
intron # 3
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|110690893|gb|EE068371.1|EE068371
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|37190159|gb|CF609508.1|CF609508
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|26257434|gb|CA808497.1|CA808497
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|71878852|gb|DT027907.1|DT027907
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|30252208|gb|CB969759.1|CB969759
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGTCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|30251454|gb|CB969187.1|CB969187
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGTCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|110715690|gb|EE094027.1|EE094027
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|71878364|gb|DT027419.1|DT027419
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|27578726|gb|CB001421.1|CB001421
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|71880010|gb|DT029065.1|DT029065
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|110367133|gb|EC931058.1|EC931058
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
EST: gi|26257329|gb|CA808392.1|CA808392
EST:     GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAG                         GTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA
genomic: GCCTAAGCCTAAACCACCTACAAAATGGGAGTTGTTTGCCAAAGCTAAAGgtcagttcct ... tctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcacgggcataaggttaatgtgcttggttgtattgctttgaaatctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTACTTGGAAGCGTCGCCATGGATATGATCGTGTAAATGATGATGAAGATAT
              ggttaat  putative branch site (score: 4)
                                      tttgaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcatgagcctaatcagcaatataatcgtgccttcagtcctagttttcacgggcataaggttaatgtgcttggttgtattgctttgaaatctgttgcagGTATAAAGAACCGCAAAAAAGATAAAATCGTTTACGATGAGCAAACTGGTACTTGGAAGCGTCGCCATGGATATGATCGTGTAAATGATGATGAAGATAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- -catgagc
- - - - - - - tcagcaa
- - - - - - - - - - - - - - - gccttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctttg