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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttttctatttcctggaaacccttaactgttttatgtttcattagcatgttgtggtgaccttttctcttcttaatcgttgcatttgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGTGACATCACTTATATATGCCAGAAGCTGGGTAGTGGCACCTGTTTATTGT

Basic information

species Vitis vinifera
transcript Vv11s0016g02870.t01
intron # 12
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|22013320|gb|BQ798354.1|BQ798354
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|22013547|gb|BQ798581.1|BQ798581
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|46910215|gb|CN545590.1|CN545590
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAAAGAAAAAGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|110398465|gb|EC964847.1|EC964847
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|110716318|gb|EE091196.1|EE091196
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|71882076|gb|DT031131.1|DT031131
EST:     CTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|110382252|gb|EC938898.1|EC938898
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|22014250|gb|BQ799284.1|BQ799284
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|22013611|gb|BQ798645.1|BQ798645
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
EST: gi|352763498|gb|FQ473201.1|FQ473201
EST:     CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATG                         TTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT
genomic: CACCCAGAAGCTTCTTTCTTCCCCTCTCACAATGGCATCGTACGGAGATGgtaacttttc ... tgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattagcatgttgtggtgaccttttctcttcttaatcgttgcatttgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGTGACATCACTTATATATGCCAGAAGCTGGGTAGTGGCACCTGTTTATTGT
                             tcttaat  putative branch site (score: 3)
                                           tttgtttccc  putative PPT
                            ttcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacttttctatttcctggaaacccttaactgttttatgtttcattagcatgttgtggtgaccttttctcttcttaatcgttgcatttgtttcccagTTATTTTTGTACCAAGCTACGAAAATGTAAGCAGCAAGTTCCAATCAAAGTGACATCACTTATATATGCCAGAAGCTGGGTAGTGGCACCTGTTTATTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG