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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataaaaggaaatattcagtggttatttattttcattttcctgggttttctgggaaatcaaatattattattcatgactaatatgctgacaattggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG

Basic information

species Vitis vinifera
transcript Vv13s0019g04410.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|110719436|gb|EE094560.1|EE094560
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|161711225|gb|FC060729.1|FC060729
EST:     GCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: GCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110713284|gb|EE089069.1|EE089069
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110711718|gb|EE088519.1|EE088519
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110719675|gb|EE095009.1|EE095009
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110719112|gb|EE096713.1|EE096713
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|161721129|gb|FC070378.1|FC070378
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110711029|gb|EE087758.1|EE087758
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCACCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|161714635|gb|FC063589.1|FC063589
EST:     CGCCAGATCCTCTTCTCAGGACCATTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: CGCCAGATCCTCTTCTCAGGACC-TTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|161721124|gb|FC071011.1|FC071011
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110713562|gb|EE089592.1|EE089592
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110713722|gb|EE089892.1|EE089892
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110710949|gb|EE087590.1|EE087590
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGGCTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110718496|gb|EE095393.1|EE095393
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|110720314|gb|EE096130.1|EE096130
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
EST: gi|37190011|gb|CF609360.1|CF609360
EST:     TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGA                         ATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
genomic: TCGCCAGATCCTCTTCTCAGGACCTTCAGATCGCCAACGCCGAGCGTAGAgtacgctctt ... attggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgggaaatcaaatattattattcatgactaatatgctgacaattggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG
                                     tgctgac  putative branch site (score: 2)
        aaatcaaatattatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataaaaggaaatattcagtggttatttattttcattttcctgggttttctgggaaatcaaatattattattcatgactaatatgctgacaattggtgcagATCGACTTGACTTCGCATATCATTAAGGTTTTCCTGACTCTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - ggaaata
- - - - - - - - - - - - - - - - - - ttcctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgctg