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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttacagatttgatgaatcatttgatatatgcatgctctcacaattctaccaacaaaaccccctagtgtgtcttgtcttgaaaaatattcaccctattcatgggaattttacatttctatttttacaatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCAAGGCTTCTGCAGGAGCAGCAGGAAAGATACATCTCATGATAATTTTAAC

Basic information

species Vitis vinifera
transcript Vv06s0004g02910.t01
intron # 11
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|71873591|gb|DT022646.1|DT022646
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|71878775|gb|DT027830.1|DT027830
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|32246436|gb|CD712255.1|CD712255
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAATGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|77579990|gb|DV218875.1|DV218875
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|32246435|gb|CD712254.1|CD712254
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAATGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|71880713|gb|DT029768.1|DT029768
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|27586915|gb|CB009610.1|CB009610
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAATGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|71877702|gb|DT026757.1|DT026757
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|77584731|gb|DV221439.1|DV221439
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAATATTTGCAAG                         GCTGATCTGGATGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|71876313|gb|DT025368.1|DT025368
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAATATTTGCAAG                         GCTGATCTGGATGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
EST: gi|110689388|gb|EE065570.1|EE065570
EST:     CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG                         GCTGATCTGGANGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA
genomic: CACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAGgtacttacag ... caatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaatattcaccctattcatgggaattttacatttctatttttacaatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCAAGGCTTCTGCAGGAGCAGCAGGAAAGATACATCTCATGATAATTTTAAC
                                       tttttac  CT-rich tract
                        aattttacatttctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttacagatttgatgaatcatttgatatatgcatgctctcacaattctaccaacaaaaccccctagtgtgtcttgtcttgaaaaatattcaccctattcatgggaattttacatttctatttttacaatctatagGCTGATCTGGAGGAAGTGAAGGCTCTATATCTAGACGCAAAGTCTTCAGCAAGGCTTCTGCAGGAGCAGCAGGAAAGATACATCTCATGATAATTTTAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG