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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctctatcaatatatgtatggtattgggatttttttttgttttttccttgtatctgatttgggattttggagttgttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGCGGCTCTGGAAATAACATTAGACCCATCAAAGCTGCCGTAGAGATGCCTC

Basic information

species Vitis vinifera
transcript Vv01s0011g01080.t01
intron # 1
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|349826229|gb|FQ416034.1|FQ416034
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|349830971|gb|FQ418255.1|FQ418255
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351025692|gb|FQ426706.1|FQ426706
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|349824034|gb|FQ417421.1|FQ417421
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351019251|gb|FQ429411.1|FQ429411
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|349832506|gb|FQ421067.1|FQ421067
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351048408|gb|FQ448682.1|FQ448682
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCCTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|349821313|gb|FQ404445.1|FQ404445
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCCTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351053396|gb|FQ455732.1|FQ455732
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGATTGTCCTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351029274|gb|FQ436668.1|FQ436668
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351028541|gb|FQ444822.1|FQ444822
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351053071|gb|FQ456678.1|FQ456678
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCCTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351016333|gb|FQ446193.1|FQ446193
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351013379|gb|FQ425410.1|FQ425410
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351015737|gb|FQ431692.1|FQ431692
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC
EST: gi|351034855|gb|FQ458212.1|FQ458212
EST:     CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAG                         GGTTTCTGCAATGGGTTGTCCTCATCACGACCCAACTACTCTTGGATGCGC
genomic: CTTCTCCTCTTCTCCACCACCCAACCCACTGCTTCATCTCCAGTAACCAGgtctctctat ... gttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttgttttttccttgtatctgatttgggattttggagttgttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGCGGCTCTGGAAATAACATTAGACCCATCAAAGCTGCCGTAGAGATGCCTC
                      atctgat  putative branch site (score: 4)
                                           ttgttctt  putative PPT
     ttttgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctctctatcaatatatgtatggtattgggatttttttttgttttttccttgtatctgatttgggattttggagttgttcttgaagGGTTTCTGCAATGGGTTGTCTTCATCACGACCCAACTACTCTTGGATGCGCGGCTCTGGAAATAACATTAGACCCATCAAAGCTGCCGTAGAGATGCCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG