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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtaagttagaaatgtttgaggaagcagtgagagcaattttctcataattttccagaatgatctctgaatttaatcaataatgtgggttcttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGCAATGTTTGCTTATGGATTAG

Basic information

species Vitis vinifera
transcript Vv02s0025g03400.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|110358368|gb|EC922530.1|EC922530
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|71882067|gb|DT031122.1|DT031122
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|30129909|gb|CB915248.1|CB915248
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|71885798|gb|DT034853.1|DT034853
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|32245741|gb|CD711560.1|CD711560
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|110362845|gb|EC926402.1|EC926402
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|110716312|gb|EE091183.1|EE091183
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAN                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|110421268|gb|EC987564.1|EC987564
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|32246367|gb|CD712186.1|CD712186
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
EST: gi|110687575|gb|EE065143.1|EE065143
EST:     GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAG                         GTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC
genomic: GGCTTTGGTGACATCCTATTACCAGGACTGCTAATAGCATTTTCACTTAGgtctaagctc ... cttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataattttccagaatgatctctgaatttaatcaataatgtgggttcttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGCAATGTTTGCTTATGGATTAG
                        atttaat  putative branch site (score: 4)
                                           ttcttcttgc  putative PPT
                     tgaatttaatcaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgtaagttagaaatgtttgaggaagcagtgagagcaattttctcataattttccagaatgatctctgaatttaatcaataatgtgggttcttcttgcagGTATGATTGGCTGGCAAAGAAGAATATCCAAACTGGATACTTTTTGTGGGCAATGTTTGCTTATGGATTAG

- - - - - - - - - - -ggaagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgggtt