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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcttttctttactgatccatggaatttatacacaaaaatttaggattatagccatgaaatcgtttcttggattgggttggatgaaatattgagtattcgaattaaactttttgtgagtgtattcttcctttttcttcctttttgtctttttattgagtgtgttgattcatgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTTGTTGATTTG

Basic information

species Vitis vinifera
transcript Vv11s0052g00880.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|352773726|gb|FQ472508.1|FQ472508
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|37183853|gb|CF603207.1|CF603207
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352782404|gb|FQ470307.1|FQ470307
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352768454|gb|FQ469630.1|FQ469630
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352781804|gb|FQ469102.1|FQ469102
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|161721502|gb|FC069730.1|FC069730
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352773660|gb|FQ472442.1|FQ472442
EST:     TCACCATCTTCTTCGGAACACAGACCGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352781671|gb|FQ468969.1|FQ468969
EST:     TCACCATCTTCTTCGGAACACAGACCGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAACCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352768225|gb|FQ469400.1|FQ469400
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352774217|gb|FQ474740.1|FQ474740
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352776602|gb|FQ474904.1|FQ474904
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAAAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|161720998|gb|FC070701.1|FC070701
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352777575|gb|FQ466628.1|FQ466628
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352781981|gb|FQ469279.1|FQ469279
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|71863842|gb|DT012897.1|DT012897
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352782151|gb|FQ470053.1|FQ470053
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
EST: gi|352772720|gb|FQ473758.1|FQ473758
EST:     TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAG                         GCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT
genomic: TCACCATCTTCTTCGGAACACAGACGGGAACTGCGGAAGGCTTCGCTAAGgtgagctttt ... tgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctttttcttcctttttgtctttttattgagtgtgttgattcatgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTTGTTGATTTG
                                   tgttgat  putative branch site (score: 4)
              tttttgtctttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcttttctttactgatccatggaatttatacacaaaaatttaggattatagccatgaaatcgtttcttggattgggttggatgaaatattgagtattcgaattaaactttttgtgagtgtattcttcctttttcttcctttttgtctttttattgagtgtgttgattcatgatgtgaagGCCCTTGCTGAAGAAGCCAAAGCTCGGTATGAAAAGGCGATCTTCAAAGTTGTTGATTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC