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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaactttggttgggaaaagttatagatggttgcaatcagtaaagggatttgatcaagaattcgaaattgttacttgtgcctctgcttaatgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCATAGTCACTGGAGACCTCATTAGTCTGTCGGAGCAAGAACTTGTAGACTG

Basic information

species Vitis vinifera
transcript Vv10s0003g01360.t01
intron # 2
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|110729443|gb|EE105401.1|EE105401
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110728252|gb|EE103660.1|EE103660
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110698587|gb|EE076253.1|EE076253
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|352787242|gb|FQ477862.1|FQ477862
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110721961|gb|EE097772.1|EE097772
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110722889|gb|EE099575.1|EE099575
EST:     TTGGAGGAAGAANGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110724627|gb|EE100619.1|EE100619
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110724911|gb|EE101155.1|EE101155
EST:     TTGGAGGAAGAAAGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110721717|gb|EE099035.1|EE099035
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|71868377|gb|DT017432.1|DT017432
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|352773111|gb|FQ470726.1|FQ470726
EST:     TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110723202|gb|EE100248.1|EE100248
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110689532|gb|EE065840.1|EE065840
EST:     TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110708863|gb|EE086888.1|EE086888
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|71884446|gb|DT033501.1|DT033501
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACC-AGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110724508|gb|EE100395.1|EE100395
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|37185025|gb|CF604378.1|CF604378
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110709357|gb|EE084747.1|EE084747
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110726274|gb|EE101910.1|EE101910
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCATTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|161711615|gb|FC059531.1|FC059531
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|161721687|gb|FC069817.1|FC069817
EST:     TTGGAGGAAGAAGGGTGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|110687163|gb|EE064331.1|EE064331
EST:     TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCA
EST: gi|37184235|gb|CF603589.1|CF603589
EST:     TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTG                         GAAGTTGCTGGGCGTTCTCTTCCA
genomic: TTGGAGGAAGAAGGGCGTTGTCACCGGGATAAAAGACCAAGGCGATTGTGgtaagtctta ... tgtcacacagGAAGTTGCTGGGCGTTCTCTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttgatcaagaattcgaaattgttacttgtgcctctgcttaatgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCATAGTCACTGGAGACCTCATTAGTCTGTCGGAGCAAGAACTTGTAGACTG
                                       gcttaat  putative branch site (score: 4)
                   aaattgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaactttggttgggaaaagttatagatggttgcaatcagtaaagggatttgatcaagaattcgaaattgttacttgtgcctctgcttaatgtcacacagGAAGTTGCTGGGCGTTCTCTTCCACTGGAGCCATGGAAGGAATAAATGCCATAGTCACTGGAGACCTCATTAGTCTGTCGGAGCAAGAACTTGTAGACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
aaaactt
- - - - - - gggaaaa
- - - - - - - - - - - -tagatgg
- - - - - - - - - - - - - - - - gcaatca
- - - - - - - - - - - - - - - - - - - - -aaaggga
- - - - - - - - - - - - - - - - - - - - - - - - - - -tcaagaa