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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgctaccttcatttgtaaggatgggtctctttcctcgaagcatgcaaaatttttcttctatgcctggtgtcctaattgttgtttctcattggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAATATGCTGCCATGAATCCCAACTTTGTGGGCTGTGTTGAGGGAGCCTTGG

Basic information

species Vitis vinifera
transcript Vv14s0066g01320.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|349812372|gb|FQ406393.1|FQ406393
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|161706829|gb|FC057618.1|FC057618
EST:     GGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCA-GTCACCTCCAT                         GCTTCAGCTGGCAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGA
genomic: GGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAG-CACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGA
EST: gi|352785918|gb|FQ475921.1|FQ475921
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|352764500|gb|FQ472857.1|FQ472857
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|71875782|gb|DT024837.1|DT024837
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|29781912|gb|CB346743.2|CB346743
EST:     GCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|161716875|gb|FC068803.1|FC068803
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|349814228|gb|FQ414847.1|FQ414847
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|110374898|gb|EC939839.1|EC939839
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAGGCACCTCCAT                         GCTTCAGCTGGCAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|352781404|gb|FQ468248.1|FQ468248
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|30300514|gb|CB977308.1|CB977308
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAGGCACCTCCAT                         GCTTCAGCTGGCAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCTATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|349814411|gb|FQ398851.1|FQ398851
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|349808355|gb|FQ405523.1|FQ405523
EST:     GGGCTTTTGCTCTGGGTTCTACCTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|161712335|gb|FC061660.1|FC061660
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|352781529|gb|FQ468373.1|FQ468373
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|349826487|gb|FQ418578.1|FQ418578
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|110409955|gb|EC975630.1|EC975630
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|110374890|gb|EC939831.1|EC939831
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAGGCACCTCCAT                         GCTTCAGCTGGCAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|110685149|gb|EE063240.1|EE063240
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|71866313|gb|DT015368.1|DT015368
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAGGCACCTCCAT                         GCTTCAGCTGGCAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|34548582|gb|CF516814.1|CF516814
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAGGCACCTCCAT                         GCTTCAGCTGGCAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|161719093|gb|FC065413.1|FC065413
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|349826629|gb|FQ418720.1|FQ418720
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
EST: gi|352768908|gb|FQ468099.1|FQ468099
EST:     GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCAT                         GCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA
genomic: GGGCTTTTGCTCTGGGTTCTACTTCCGGGGCTCTTACCAAGCACCTCCATgtgagcattt ... ttggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaaaatttttcttctatgcctggtgtcctaattgttgtttctcattggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAATATGCTGCCATGAATCCCAACTTTGTGGGCTGTGTTGAGGGAGCCTTGG
                          tcctaat  putative branch site (score: 2)
                                      tttctcatt  putative PPT
     atttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgctaccttcatttgtaaggatgggtctctttcctcgaagcatgcaaaatttttcttctatgcctggtgtcctaattgttgtttctcattggaaacagGCTTCAGCTGGAAGCAAAAAGATTGTTGGGGTGTTTTACAAGGCCAATGAATATGCTGCCATGAATCCCAACTTTGTGGGCTGTGTTGAGGGAGCCTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - accttca
- - - - - - - - - - ggatggg
- - - - - - - - - - - - - - -tctttcc
- - - - - - - - - - - - - - - - - - - - -gcatgca