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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctagttaatggttatttatgagttctttgctgtttatttgggtttcaagagaaggaaacattcatattctttgacattgttaatgctggattttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG

Basic information

species Vitis vinifera
transcript Vv17s0000g00610.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|161716905|gb|FC068127.1|FC068127
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|30298293|gb|CB975087.1|CB975087
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|294965161|gb|GW836992.1|GW836992
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|110391172|gb|EC956130.1|EC956130
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|110396526|gb|EC962216.1|EC962216
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|71856652|gb|DT005707.1|DT005707
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|110401583|gb|EC968197.1|EC968197
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|161714263|gb|FC064160.1|FC064160
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|351028328|gb|FQ427224.1|FQ427224
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|77581774|gb|DV219842.1|DV219842
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|77583170|gb|DV220622.1|DV220622
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|71890757|gb|DT039812.1|DT039812
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|77588446|gb|DV223434.1|DV223434
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
EST: gi|161706306|gb|FC057550.1|FC057550
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAAATGGCAATTTGCCA
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAA-TG-CAATTTGCCA
EST: gi|110412172|gb|EC977911.1|EC977911
EST:     GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTG                         ATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
genomic: GGGCACGCCCTACGAAGGGGGCATCTTCCAAATCGACATCGTTTTGCCTGgtatataatg ... ttttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagagaaggaaacattcatattctttgacattgttaatgctggattttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG
                                tgttaat  putative branch site (score: 3)
                                             ttttttgc  putative PPT
              attcatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctagttaatggttatttatgagttctttgctgtttatttgggtttcaagagaaggaaacattcatattctttgacattgttaatgctggattttttgcagATGGGTACCCTTTTGAGCCTCCAAGAATGCAATTTGCCACGAAAGTTTG

- - - - - - - - - - - - - -tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - aagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgctg