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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctttattttagatgcatctatttttctatttttgaggaccgaagaaagctctcattttcattatttgtatcttatagttgcctggttttgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG

Basic information

species Vitis vinifera
transcript Vv01s0010g03380.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|351013781|gb|FQ433933.1|FQ433933
EST:     GGTGAAGTACTCCAGAGAGCCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110385986|gb|EC950553.1|EC950553
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110378218|gb|EC943338.1|EC943338
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110688549|gb|EE067229.1|EE067229
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|71869773|gb|DT018828.1|DT018828
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110689920|gb|EE066564.1|EE066564
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110715617|gb|EE093874.1|EE093874
EST:     GGTGAAGTACTCCAGAGAGCCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110419782|gb|EC986031.1|EC986031
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110717067|gb|EE092597.1|EE092597
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|351024796|gb|FQ430621.1|FQ430621
EST:     GGTGAAGTACTCCAGAGAGCCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110374693|gb|EC939616.1|EC939616
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110387423|gb|EC952086.1|EC952086
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|352787033|gb|FQ476066.1|FQ476066
EST:     GGTGAAGTACTTCAGAGAGCCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110372343|gb|EC936500.1|EC936500
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110694415|gb|EE071499.1|EE071499
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110705483|gb|EE082385.1|EE082385
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|77588447|gb|DV223435.1|DV223435
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|77579783|gb|DV218769.1|DV218769
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110375254|gb|EC940222.1|EC940222
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110715297|gb|EE093186.1|EE093186
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|351013783|gb|FQ433935.1|FQ433935
EST:     GGTGAAGTACTCCAGAGAGCCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110716791|gb|EE092082.1|EE092082
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110696430|gb|EE072550.1|EE072550
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110701152|gb|EE078432.1|EE078432
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
EST: gi|110725494|gb|EE102063.1|EE102063
EST:     GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGT                         CTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
genomic: GGTGAAGTACTCCAGAGAACCGGACAACCCCACTAAGTgtaagcacct ... tgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaagctctcattttcattatttgtatcttatagttgcctggttttgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG
                                          ttttgat  putative branch site (score: 4)
          attttcattatttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctttattttagatgcatctatttttctatttttgaggaccgaagaaagctctcattttcattatttgtatcttatagttgcctggttttgatgcgcagCTTGCAAGGCCAGGGGGTCAGATCTCAGAGTTCATTTCAAG

- - - - - - - -gcatcta
- - - - - - - - - - - - - - - - - - - - - gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcctgg