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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaaatgtttacatactgatattagaatatctactaacagatactagaatggaactagttttgcacctaattcggattctctttgtttgggtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAGATAGAATGGGTGAACTCCTACCATTCCACCTGTAGAGACATTCTGGCCC

Basic information

species Vitis vinifera
transcript Vv04s0023g01300.t01
intron # 15
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|110429925|gb|EC996439.1|EC996439
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|27582875|gb|CB005570.1|CB005570
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|30302963|gb|CB979757.1|CB979757
EST:     GGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: GGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|33401954|gb|CF207581.1|CF207581
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGGCCAGAGCCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|29782363|gb|CB347609.2|CB347609
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|110700420|gb|EE078440.1|EE078440
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|30299030|gb|CB975824.1|CB975824
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|32246039|gb|CD711858.1|CD711858
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|110379199|gb|EC944379.1|EC944379
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
EST: gi|29782317|gb|CB347526.2|CB347526
EST:     AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGG                         GCACCATACCNNNNNNNGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG
genomic: AATTCAATTTTGGTGATAAGGGTTACTTGGCATTTGAACACATAACATGGgtaagtttat ... gtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaatggaactagttttgcacctaattcggattctctttgtttgggtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAGATAGAATGGGTGAACTCCTACCATTCCACCTGTAGAGACATTCTGGCCC
                   acctaat  putative branch site (score: 3)
          tagtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaaatgtttacatactgatattagaatatctactaacagatactagaatggaactagttttgcacctaattcggattctctttgtttgggtgtgcccagGCACCATACCAAAAAAAGTTGATTGACCAGAGTCTTTTAACGCCTGAAGAGATAGAATGGGTGAACTCCTACCATTCCACCTGTAGAGACATTCTGGCCC

gcaaatg
- - - - - -catactg
- - - - - - - - - - - - - - - - - taacaga
- - - - - - - - - - - - - - - - - - - - - - - -aatggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacctaa