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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtggttaactcatttgacttgtcataaaaaataaatcagttgcattttcctaaatgaaattgcctttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCTGTCAGCCTTCCCAAGCTTCAAAACTTAATAAGCAGTATTTTGAAAATGT

Basic information

species Vitis vinifera
transcript Vv06s0061g01040.t01
intron # 12
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|351012857|gb|FQ430420.1|FQ430420
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|30301734|gb|CB978528.1|CB978528
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|38516556|gb|CF983731.1|CF983731
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTTGGGAATTTGTTTCGCAATG
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTT-GGGAATT-GTTTCGCAATG
EST: gi|351012088|gb|FQ429894.1|FQ429894
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|351016543|gb|FQ423970.1|FQ423970
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|351021994|gb|FQ437781.1|FQ437781
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|351030739|gb|FQ438577.1|FQ438577
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|349814521|gb|FQ399161.1|FQ399161
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
EST: gi|351049114|gb|FQ431658.1|FQ431658
EST:     ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATG                         GTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT
genomic: ACAACTCCAGCTGCTGATAATTATTCTACCTGATGTAACTGGGTCATATGgtgagtggtt ... tttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcataaaaaataaatcagttgcattttcctaaatgaaattgcctttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCTGTCAGCCTTCCCAAGCTTCAAAACTTAATAAGCAGTATTTTGAAAATGT
                            tcctaaa  putative branch site (score: 2)
                                        ttgccttt  putative PPT
     taaaaaataaatcagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtggttaactcatttgacttgtcataaaaaataaatcagttgcattttcctaaatgaaattgcctttgttgcagGTAAAATCAAACGAATATGTGAAACGGAGTTGGGAATTGTTTCGCAATGCTGTCAGCCTTCCCAAGCTTCAAAACTTAATAAGCAGTATTTTGAAAATGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT