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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgctgaaacctaaaattgttgaagtgattcatcagcttgacacttctcatgtttgcagagtaaatcattattattgaaacctactttcttttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACATGACGGGTAGAGCTAGGACTCAAGCGTAAGTGAAAACAAAAAAACATTT

Basic information

species Vitis vinifera
transcript Vv13s0019g04410.t01
intron # 8
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|71865487|gb|DT014542.1|DT014542
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCAGA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|351015486|gb|FQ447315.1|FQ447315
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|71881801|gb|DT030856.1|DT030856
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGAC
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGAC
EST: gi|349824067|gb|FQ417454.1|FQ417454
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|351031867|gb|FQ460124.1|FQ460124
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|352790365|gb|FQ478005.1|FQ478005
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|349816667|gb|FQ404914.1|FQ404914
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCAC
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCAC
EST: gi|51052013|gb|CO819346.1|CO819346
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|351051855|gb|FQ455269.1|FQ455269
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|30132659|gb|CB917998.1|CB917998
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|351045790|gb|FQ440975.1|FQ440975
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|349811345|gb|FQ407571.1|FQ407571
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|351048526|gb|FQ448800.1|FQ448800
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|351053182|gb|FQ455639.1|FQ455639
EST:     CATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTCAAAG                         CTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
genomic: CATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCTCAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACA
EST: gi|349807244|gb|FQ401236.1|FQ401236
EST:     ATCGATCTTTCCATACGCAAATAACAAAATGTTGAGAGAATTCTTCAA-G                         CTGAAACGGATGACGCACATCCACTTATTTAGC
genomic: ATCGATCTTTCCATACGCAAATAACAAAATGTCGAGAGAATTCT-CAAAGgtatgttgct ... tttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcatgtttgcagagtaaatcattattattgaaacctactttcttttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACATGACGGGTAGAGCTAGGACTCAAGCGTAAGTGAAAACAAAAAAACATTT
                                   cctactttcttttctt  CT-rich tract
              agtaaatcattattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttgctgaaacctaaaattgttgaagtgattcatcagcttgacacttctcatgtttgcagagtaaatcattattattgaaacctactttcttttcttgtagCTGAAACGGATGACGCACATCCACTTATTTAGCATGCTGTGACTGAGCACATGACGGGTAGAGCTAGGACTCAAGCGTAAGTGAAAACAAAAAAACATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT