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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttcttttgaatttctatatattatacattcaaactcgttgatgttgtgtgatttgaagcagacctctgattgtttgttattctctttgtcttcgtgtttttcgtgtgatctgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT

Basic information

species Vitis vinifera
transcript Vv18s0001g07960.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|352776821|gb|FQ472708.1|FQ472708
EST:     TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|352795184|gb|FQ477294.1|FQ477294
EST:     TCAAGAAGCCGATTAGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71862434|gb|DT011489.1|DT011489
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|352764989|gb|FQ473637.1|FQ473637
EST:     TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71855735|gb|DT004790.1|DT004790
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71854985|gb|DT004040.1|DT004040
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71858517|gb|DT007572.1|DT007572
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71857493|gb|DT006548.1|DT006548
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71858780|gb|DT007835.1|DT007835
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71854655|gb|DT003710.1|DT003710
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|161708846|gb|FC059632.1|FC059632
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|352781776|gb|FQ469074.1|FQ469074
EST:     TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|110359383|gb|EC920779.1|EC920779
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71858467|gb|DT007522.1|DT007522
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|294966030|gb|GW837397.1|GW837397
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71855977|gb|DT005032.1|DT005032
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71857388|gb|DT006443.1|DT006443
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|352764283|gb|FQ471263.1|FQ471263
EST:     TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|352768688|gb|FQ467900.1|FQ467900
EST:     GGCGGTTCCCTTTACTACTTG                         TCATCTCTCCTGAACGAAGTTGTCTGCGAAAAAGATAAATCTCGTATTACT
genomic: GGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71858984|gb|DT008039.1|DT008039
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71859287|gb|DT008342.1|DT008342
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|161713667|gb|FC062807.1|FC062807
EST:     TCAAGAAGCCGATTAGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|352765325|gb|FQ466022.1|FQ466022
EST:     TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71856061|gb|DT005116.1|DT005116
EST:     TCAAGAAGCCGATTCGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTTTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
EST: gi|71857262|gb|DT006317.1|DT006317
EST:     TCAAGAAGCCGATTAGGCCTCTTATCAATGGCGGTTCCCTTTACTACATG                         TCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
genomic: TCAAGAAGCCGATTGGGCCTCTTATCAATGGCGGTTCCCTTTACTACATGgtgttctttt ... tgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgattgtttgttattctctttgtcttcgtgtttttcgtgtgatctgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT
 ctctgat  putative branch site (score: 4)
                                           tctgtttc  putative PPT
       tttgttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgttcttttgaatttctatatattatacattcaaactcgttgatgttgtgtgatttgaagcagacctctgattgtttgttattctctttgtcttcgtgtttttcgtgtgatctgtttcatagTCATCTCTCCCGAACGAAGTTGTCTGCGAAAAAGAGAAATCTCGTATTACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA