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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctattttattttgcttagaggcaccttaccataatttgttcaagtgtgtttcattaccacttaattcttaattatcatattgaatctgttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAATGCATGCAGTAGTAGTAGATATTCTGAAGCAAGTAGACTTTAATACT

Basic information

species Vitis vinifera
transcript Vv17s0000g00960.t01
intron # 8
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|30301837|gb|CB978631.1|CB978631
EST:     TAAAAAACGATCAAGCAGGGCAACAGAAAAGGTTTCATCAAAGGATCTAG                         GAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
genomic: TAAAAAACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAGgtatggacct ... ttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
EST: gi|32245822|gb|CD711641.1|CD711641
EST:     TAAAAAACTATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAG                         GAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
genomic: TAAAAAACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAGgtatggacct ... ttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
EST: gi|352772615|gb|FQ472090.1|FQ472090
EST:     ACGATCAAGCAGGGGGACAGAAAAGGTTTCATCAAGGGATTTAG                         GAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCGGAGAAGAAA
genomic: ACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAGgtatggacct ... ttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
EST: gi|352773138|gb|FQ470753.1|FQ470753
EST:     TAAAAAACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAG                         GAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
genomic: TAAAAAACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAGgtatggacct ... ttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
EST: gi|77579499|gb|DV218588.1|DV218588
EST:     TAAAAAACTATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAG                         GAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
genomic: TAAAAAACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAGgtatggacct ... ttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
EST: gi|110363707|gb|EC927317.1|EC927317
EST:     TAAAAAACTATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAG                         GAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA
genomic: TAAAAAACGATCAAGCAGGGCGACAGAAAAGGTTTCATCAAAGGATCTAGgtatggacct ... ttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtttcattaccacttaattcttaattatcatattgaatctgttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAATGCATGCAGTAGTAGTAGATATTCTGAAGCAAGTAGACTTTAATACT
                      tcttaat  putative branch site (score: 3)
               acttaattcttaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctctattttattttgcttagaggcaccttaccataatttgttcaagtgtgtttcattaccacttaattcttaattatcatattgaatctgttggaatcagGAAAAGGCAAAACTAGCAAGAAGGCAAAGCCAGAACCCAGCAGAGAAGAAATGCATGCAGTAGTAGTAGATATTCTGAAGCAAGTAGACTTTAATACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - -tgcttag
- - - - - - - - - - - - - cttacca
- - - - - - - - - - - - - - - - - - - - - caagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccactta