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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagaaaagagcaggagtctctcatcaagtatagggatagcctagtactttgttgattctcaattcaaatggttttctcacctttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTAGGACGACAGGTATTGAAGGCAGGATTGTGAATCTGTCTTCAATAGCCCA

Basic information

species Vitis vinifera
transcript Vv08s0040g03400.t01
intron # 3
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|71872354|gb|DT021409.1|DT021409
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|71874111|gb|DT023166.1|DT023166
EST:     CCAACTTTCACAAGATGGGATAGATTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|71872854|gb|DT021909.1|DT021909
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGANNNNNNNNA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|71869703|gb|DT018758.1|DT018758
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|110378703|gb|EC943847.1|EC943847
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|110417471|gb|EC983528.1|EC983528
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|110425890|gb|EC992285.1|EC992285
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|71872056|gb|DT021111.1|DT021111
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
EST: gi|110377232|gb|EC942294.1|EC942294
EST:     CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTG                         GCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA
genomic: CCAACTTTCACAAGATGGGATAGAGTCCCAATTTGCAACAAATCATATTGgtaagtagaa ... ttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcctagtactttgttgattctcaattcaaatggttttctcacctttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTAGGACGACAGGTATTGAAGGCAGGATTGTGAATCTGTCTTCAATAGCCCA
                                    ttctcac  putative branch site (score: 2)
                                  ttttctcacctttat  CT-rich tract
                       aattcaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtagaaaagagcaggagtctctcatcaagtatagggatagcctagtactttgttgattctcaattcaaatggttttctcacctttatgatcagGCCATTTCCTCTTAACAAACCTCCTGCTTGACAAAATGAAGAGCACGGCTAGGACGACAGGTATTGAAGGCAGGATTGTGAATCTGTCTTCAATAGCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG