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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacattaactcaagtagaattagatcaaaagctaccagttatcatattcttgtgtagattagatgatttgtttgtgaaaaccgactgttatttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACACCCAACAGAGCGAAGTCAGCCAAGCGTCTAGTTGAGTGTGCAGCCCGTG

Basic information

species Vitis vinifera
transcript Vv14s0060g02070.t01
intron # 5
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|27580413|gb|CB003108.1|CB003108
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|45368289|gb|CK906648.1|CK906648
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|110409995|gb|EC975670.1|EC975670
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|18458179|gb|BM436457.1|BM436457
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|30133774|gb|CB919113.1|CB919113
EST:     ACAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTAGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|110685667|gb|EE062587.1|EE062587
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|26264216|gb|CA815279.1|CA815279
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|45368321|gb|CK906680.1|CK906680
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTACTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|110415268|gb|EC981156.1|EC981156
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|27582820|gb|CB005515.1|CB005515
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|45368080|gb|CK906439.1|CK906439
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
EST: gi|27581116|gb|CB003811.1|CB003811
EST:     AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGG                         GTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA
genomic: AGAGGAACATAACCAGCAGAGACCAATTTGTTGTGCTTGCAACTGATGGGgtatgtactg ... atttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcttgtgtagattagatgatttgtttgtgaaaaccgactgttatttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACACCCAACAGAGCGAAGTCAGCCAAGCGTCTAGTTGAGTGTGCAGCCCGTG
                                              tttgttc  CT-rich tract
                                           ttatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaacattaactcaagtagaattagatcaaaagctaccagttatcatattcttgtgtagattagatgatttgtttgtgaaaaccgactgttatttgttcagGTCTGGGATGTTGTCTCAAATCAAGAAGCAGTGCAAATAGTATCTTCAACACCCAACAGAGCGAAGTCAGCCAAGCGTCTAGTTGAGTGTGCAGCCCGTG

- -cattaac
- - - - - tcaagta
- - - - - - - - - - - - atcaaaa
- - - - - - - - - - - - - - - -gctacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaccga