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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaaaacaaaactcctccatccatatagttcagagccatagcattaaaatcacctttccaagttcatttatcattcaattatcaatccacttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTGGTACCTCACATTGCTTCTGCTTCCAAG

Basic information

species Vitis vinifera
transcript Vv03s0038g02510.t01
intron # 9
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|110693266|gb|EE069349.1|EE069349
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|22014105|gb|BQ799139.1|BQ799139
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|110422192|gb|EC988507.1|EC988507
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|110419053|gb|EC985245.1|EC985245
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATTGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|71867913|gb|DT016968.1|DT016968
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|110388512|gb|EC953270.1|EC953270
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|110694076|gb|EE070866.1|EE070866
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|77582892|gb|DV220428.1|DV220428
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|77581720|gb|DV219804.1|DV219804
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|22014743|gb|BQ799777.1|BQ799777
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|110384301|gb|EC948729.1|EC948729
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG
EST: gi|29785291|gb|CB342154.2|CB342154
EST:     CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAG                         GATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGATCGCGATCGTG
genomic: CACATCTGAAAGAGAACCCCATGTTTCGAGTTGGACTTGATGTCTTTGAGgtaacaaaac ... cttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaatcacctttccaagttcatttatcattcaattatcaatccacttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTGGTACCTCACATTGCTTCTGCTTCCAAG
                                         tccacttctttc  CT-rich tract
                     atttatcattcaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacaaaacaaaactcctccatccatatagttcagagccatagcattaaaatcacctttccaagttcatttatcattcaattatcaatccacttctttcagGATGAACCTTACATGAAACCTGGTCTTGCTGAAATGAAGAACGCGATCGTGGTACCTCACATTGCTTCTGCTTCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC