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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatcatatgcaaaaagatgtattttttttgccttcaagttatgaagtggagaaggtctggataactggaacaagcctattgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATTGCGCGCTATG

Basic information

species Vitis vinifera
transcript Vv18s0041g01900.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|110724096|gb|EE099626.1|EE099626
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|71869083|gb|DT018138.1|DT018138
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110686647|gb|EE064527.1|EE064527
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|161718004|gb|FC068544.1|FC068544
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|161715176|gb|FC064854.1|FC064854
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|77582584|gb|DV220275.1|DV220275
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110729986|gb|EE106550.1|EE106550
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110393931|gb|EC959520.1|EC959520
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|161710388|gb|FC059006.1|FC059006
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110728722|gb|EE104537.1|EE104537
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110731114|gb|EE108966.1|EE108966
EST:     TGTATCAAATAAAAGTCCTGAATTTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: TGTATCAAATAAAAGTCCTGAA-TTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110724393|gb|EE100182.1|EE100182
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110699668|gb|EE076870.1|EE076870
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|71890428|gb|DT039483.1|DT039483
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|161710113|gb|FC059798.1|FC059798
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|110689672|gb|EE066099.1|EE066099
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|71872955|gb|DT022010.1|DT022010
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
EST: gi|161720342|gb|FC071195.1|FC071195
EST:     GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAG                         GTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT
genomic: GTGTATCAAATAAAAGTCCTGAATTTCTCAAGATGAACCCTATTGGAAAGgtatgtatca ... tgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagttatgaagtggagaaggtctggataactggaacaagcctattgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATTGCGCGCTATG
                        ggataac  putative branch site (score: 3)
                                          tattgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtatcatatgcaaaaagatgtattttttttgccttcaagttatgaagtggagaaggtctggataactggaacaagcctattgttatgcagGTTCCTGTCTTGGAAACACCTGATGGACCTGTATTTGAGAGCAATGCCATTGCGCGCTATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA