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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaatcgagtcacagagtagaaccgggctggtcatatgtgtgcagagaaataattctagtagttgttcaaacatgagttctaatactccaatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAGGGTTAAGCATTGGACAACATTTAATGAACCAAGAGTGATAGCAGCTTTA

Basic information

species Vitis vinifera
transcript Vv14s0006g01790.t01
intron # 5
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|351041108|gb|FQ444085.1|FQ444085
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352781654|gb|FQ468952.1|FQ468952
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352778017|gb|FQ467070.1|FQ467070
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|71870097|gb|DT019152.1|DT019152
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|349826342|gb|FQ417839.1|FQ417839
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|349826549|gb|FQ418640.1|FQ418640
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351055499|gb|FQ442295.1|FQ442295
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352777870|gb|FQ466923.1|FQ466923
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352763933|gb|FQ465383.1|FQ465383
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351047302|gb|FQ454913.1|FQ454913
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351055347|gb|FQ441945.1|FQ441945
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352769825|gb|FQ468753.1|FQ468753
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAA
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351019898|gb|FQ439715.1|FQ439715
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|77587229|gb|DV222748.1|DV222748
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|161712389|gb|FC061694.1|FC061694
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351056118|gb|FQ453580.1|FQ453580
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352768397|gb|FQ469573.1|FQ469573
EST:     CCTCTAGTGCTCCAGGAGAAATACCACGGTTTGCTCAGCCCCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351016119|gb|FQ432074.1|FQ432074
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351043324|gb|FQ451376.1|FQ451376
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351016022|gb|FQ431977.1|FQ431977
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|71873314|gb|DT022369.1|DT022369
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351032857|gb|FQ461746.1|FQ461746
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|110425826|gb|EC992219.1|EC992219
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|351044375|gb|FQ452927.1|FQ452927
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|352790248|gb|FQ481447.1|FQ481447
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGAC-TTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAG
EST: gi|161718844|gb|FC066359.1|FC066359
EST:     CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGT                         AGAAGACTTTGCCAATTATGCGGAGTTCTGCTT
genomic: CCTCTAGTGCTCCAGGAGAAATACAACGGTTTGCTCAGCCGCAGAATAGTgtaagtaaag ... aatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaaataattctagtagttgttcaaacatgagttctaatactccaatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAGGGTTAAGCATTGGACAACATTTAATGAACCAAGAGTGATAGCAGCTTTA
                                 ttctaat  putative branch site (score: 2)
     ataattcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaaatcgagtcacagagtagaaccgggctggtcatatgtgtgcagagaaataattctagtagttgttcaaacatgagttctaatactccaatcttgcagAGAAGACTTTGCCAATTATGCGGAGTTCTGCTTCAAGACATTTGGTGATAGGGTTAAGCATTGGACAACATTTAATGAACCAAGAGTGATAGCAGCTTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - -gggctgg
- - - - - - - - - - - - - - - - - - -tgtgtgc
- - - - - - - - - - - - - - - - - - - - - - - -gaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaacat