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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaaaatccacctgttttaggttttggttgcactgtatcttggtgctccatagattattagtttcctttatttttgctactgacttgtgttcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAGG

Basic information

species Vitis vinifera
transcript Vv08s0007g03610.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|71884694|gb|DT033749.1|DT033749
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71857656|gb|DT006711.1|DT006711
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71859550|gb|DT008605.1|DT008605
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|30255667|gb|CB971799.1|CB971799
EST:     CAAGCAAGGGGATCACGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CAAGCAAGGGG-TTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71856545|gb|DT005600.1|DT005600
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGTG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71872394|gb|DT021449.1|DT021449
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|161718345|gb|FC064769.1|FC064769
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|110380711|gb|EC945999.1|EC945999
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|110728455|gb|EE104038.1|EE104038
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTGGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|161707787|gb|FC056440.1|FC056440
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71856042|gb|DT005097.1|DT005097
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|37190404|gb|CF609753.1|CF609753
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71859937|gb|DT008992.1|DT008992
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71858668|gb|DT007723.1|DT007723
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71860428|gb|DT009483.1|DT009483
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71861795|gb|DT010850.1|DT010850
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71887849|gb|DT036904.1|DT036904
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71862830|gb|DT011885.1|DT011885
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|351014525|gb|FQ437527.1|FQ437527
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|161711333|gb|FC060384.1|FC060384
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|349827863|gb|FQ422731.1|FQ422731
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71860964|gb|DT010019.1|DT010019
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71863493|gb|DT012548.1|DT012548
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
EST: gi|71857725|gb|DT006780.1|DT006780
EST:     CCAAGCAAGGGGTTAAGCCAGGGGAGCTGGCAATTATTTCCAAAGAGGCG                         GTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG
genomic: CCAAGCAAGGGGTTAAGCCAGGGGAACTGGCAATTATTTCCAAAGAGGCGgtatgcattt ... tcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccatagattattagtttcctttatttttgctactgacttgtgttcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAGG
                                tactgac  putative branch site (score: 1)
                                            ttcacttcc  putative PPT
        attattagtttccttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaaaatccacctgttttaggttttggttgcactgtatcttggtgctccatagattattagtttcctttatttttgctactgacttgtgttcacttccagGTTGCTCCTTATGAACGTCCTGCGCTTAGCAAAGCCTACCTATTTCCTGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - tccacct
- - - - - - - - - - - - tggttgc
- - - - - - - - - - - - - - - - - - - - - -tgctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgacttg