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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caacaatatattgccaaacaatatttgatactgatctatctgttttagtttgtatttcatcattctggcttctatggaataactgacatgtgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCTCTTGCTGAAGTGCCTGAGACTTTATCAACTGAACTACGCACAAGACAAC

Basic information

species Vitis vinifera
transcript Vv15s0024g00850.t01
intron # 4
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|71854800|gb|DT003855.1|DT003855
EST:     CTGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGGTTCCGTCCCACA                         GTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
genomic: CTGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGGTTCCGTCCCACAgtaagaatta ... tgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
EST: gi|71856386|gb|DT005441.1|DT005441
EST:     TGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGGGTTCCGTCCCACA                         GTCCTATTGGTGATGGCAACAGCTTTAAATGTGCCT
genomic: TGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGG-TTCCGTCCCACAgtaagaatta ... tgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCT
EST: gi|351055169|gb|FQ440508.1|FQ440508
EST:     AAAGGTTCCGTCCCACA                         GTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
genomic: AAAGGTTCCGTCCCACAgtaagaatta ... tgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
EST: gi|351026788|gb|FQ436441.1|FQ436441
EST:     AAAGGTTCCGTCCCACA                         GTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
genomic: AAAGGTTCCGTCCCACAgtaagaatta ... tgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
EST: gi|71856875|gb|DT005930.1|DT005930
EST:     CTGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGGTTCCGTCCCACA                         GTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
genomic: CTGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGGTTCCGTCCCACAgtaagaatta ... tgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
EST: gi|351040061|gb|FQ425147.1|FQ425147
EST:     AAAGGTTCCGTCCCACA                         GTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT
genomic: AAAGGTTCCGTCCCACAgtaagaatta ... tgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttgtatttcatcattctggcttctatggaataactgacatgtgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCTCTTGCTGAAGTGCCTGAGACTTTATCAACTGAACTACGCACAAGACAAC
                                   aactgac  putative branch site (score: 2)
       tatttcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caacaatatattgccaaacaatatttgatactgatctatctgttttagtttgtatttcatcattctggcttctatggaataactgacatgtgccgtgcagGTCCTATTGTTGATGGCAACAGCTTTAAATGTGCCTCTACCTAGGCCGGCTCTTGCTGAAGTGCCTGAGACTTTATCAACTGAACTACGCACAAGACAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
-aacaata
- - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgacat