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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttgtgtatctttggacaactaccacatgggttttggaatcattgtctaaaattatatctgaaaattggccacttaacaaactcgtcatccatcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTAGTGAAGACAATGTGAAAGTTGGTGATCTTGTTGTGAAGAATCAG

Basic information

species Vitis vinifera
transcript Vv10s0116g01210.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|110723374|gb|EE100612.1|EE100612
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110703507|gb|EE080413.1|EE080413
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|71862953|gb|DT012008.1|DT012008
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110726583|gb|EE102492.1|EE102492
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|71863294|gb|DT012349.1|DT012349
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110723213|gb|EE100267.1|EE100267
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAAGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110724471|gb|EE100330.1|EE100330
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAAGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110709179|gb|EE084415.1|EE084415
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110710072|gb|EE086085.1|EE086085
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAAGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110708151|gb|EE085368.1|EE085368
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAAGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110723066|gb|EE099952.1|EE099952
EST:     CTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: CTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110709842|gb|EE085666.1|EE085666
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCANGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|71862967|gb|DT012022.1|DT012022
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110697801|gb|EE075199.1|EE075199
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110723493|gb|EE100867.1|EE100867
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|30299773|gb|CB976567.1|CB976567
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110724042|gb|EE099523.1|EE099523
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|352789600|gb|FQ476198.1|FQ476198
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
EST: gi|110684973|gb|EE062864.1|EE062864
EST:     TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATG                         GGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA
genomic: TTTCCATTCAAAGTACAAGTCAAGCCAATCAAGTACCTACAGGAAGAATGgtttgttctt ... catcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaaaattatatctgaaaattggccacttaacaaactcgtcatccatcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTAGTGAAGACAATGTGAAAGTTGGTGATCTTGTTGTGAAGAATCAG
                          acttaac  putative branch site (score: 3)
     aattatatctgaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttgtgtatctttggacaactaccacatgggttttggaatcattgtctaaaattatatctgaaaattggccacttaacaaactcgtcatccatcatgcagGGAAATCTGCTGATATCCATTATGGTACTGGAGCTATCTCAGGTTTCTTTAGTGAAGACAATGTGAAAGTTGGTGATCTTGTTGTGAAGAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - -ctaccac
- - - - - - - - - - - - - - - - - - - - cattgtc
- - - - - - - - - - - - - - - - - - - - - - - - aaaatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gccactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaactc