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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttattgatgttggtgttttggaggtaaaacaacttcagatcaaggttcttttgaagtcaattatacgtgttttatactcaatatggtttgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCTGATATTGTGGCATTATCAGAGAAGAATGCTGATCTGAAGAAGCAGGTCA

Basic information

species Vitis vinifera
transcript Vv18s0001g12130.t01
intron # 1
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|110727876|gb|EE105139.1|EE105139
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|110377248|gb|EC942310.1|EC942310
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|161718981|gb|FC067360.1|FC067360
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|110730442|gb|EE107526.1|EE107526
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|351026295|gb|FQ428307.1|FQ428307
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|110710505|gb|EE086897.1|EE086897
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|351014007|gb|FQ434159.1|FQ434159
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|18458731|gb|BM437009.1|BM437009
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|161717848|gb|FC068181.1|FC068181
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|110708541|gb|EE086198.1|EE086198
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|161712113|gb|FC061485.1|FC061485
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|110724916|gb|EE101160.1|EE101160
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|30304749|gb|CB981543.1|CB981543
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
EST: gi|110718170|gb|EE094699.1|EE094699
EST:     GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAG                         GTTGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT
genomic: GCTCCGATCCACAAATCATAAATCCTCGGCTTGTAAAATCTAATCTCCAGgttcgaatct ... tgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttcttttgaagtcaattatacgtgttttatactcaatatggtttgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCTGATATTGTGGCATTATCAGAGAAGAATGCTGATCTGAAGAAGCAGGTCA
                                           tttgttt  CT-rich tract
                          ttttatactcaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttattgatgttggtgttttggaggtaaaacaacttcagatcaaggttcttttgaagtcaattatacgtgttttatactcaatatggtttgtttgttagGTCGGTTCTCCCTCATGTGAATCCCCAGAACGGCTTAAGATGCTCAAGTCTGATATTGTGGCATTATCAGAGAAGAATGCTGATCTGAAGAAGCAGGTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - gttggtg
- - - - - - - - - - - - - -aaaacaa