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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctatttttaaagaactcctctttctttctgatttagtctatgatttcatagaaatccattcttatgatagcgtgtttctactgcattttctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACATGCCAAAGAGCTCTCGCGGCGTTTGCAG

Basic information

species Vitis vinifera
transcript Vv08s0040g03400.t01
intron # 4
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|71872354|gb|DT021409.1|DT021409
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGC
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGC
EST: gi|71874111|gb|DT023166.1|DT023166
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|71872854|gb|DT021909.1|DT021909
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAACTTGCAAACATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|254916701|gb|GR905527.1|GR905527
EST:     GGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAACTTGCAAACATATTACA
genomic: GGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|71869703|gb|DT018758.1|DT018758
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAAT
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAAT
EST: gi|110378703|gb|EC943847.1|EC943847
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|110417471|gb|EC983528.1|EC983528
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|110425890|gb|EC992285.1|EC992285
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|71872056|gb|DT021111.1|DT021111
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAACTTGCAA-CATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
EST: gi|110377232|gb|EC942294.1|EC942294
EST:     CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAG                         TTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA
genomic: CACACTTACGAAAATGGGATAAAATTTGATGGCATCAATGATGAGAAGAGgtatgctatt ... ctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatagaaatccattcttatgatagcgtgtttctactgcattttctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACATGCCAAAGAGCTCTCGCGGCGTTTGCAG
                                       cattttct  CT-rich tract
             attcttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctatttttaaagaactcctctttctttctgatttagtctatgatttcatagaaatccattcttatgatagcgtgtttctactgcattttctgagatcagTTACTCGGACAAGAGGGCGTACGGCCAATCCAAGCTTGCAAACATATTACATGCCAAAGAGCTCTCGCGGCGTTTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT