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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttatctctccaacctggccaagaattttttcatttagtcctggaagagacatttttagctgataaattgaagtgatctatagtatctaggcatttgcattataacttcagttggcttgtagcatgtgttaattagagcttttgaatattttagttgtgaatcacggcaacttcaacaatttttgttttctgcatcagGATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTACTCGCCTATTTGTACATATTTGATGTTTTTGCAAG

Basic information

species Vitis vinifera
transcript Vv08s0056g01280.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0056g01280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G04250.1 (Glycine max), 3'ss of exon 5
gtttatctctccaacctggccaagaattttttcatttagtcctggaagagacatttttagctgataaattgaagtgatctatagtatctaggcatttgcattataacttcagttggcttgtagcatgtgttaattagagcttttgaatattttagttgtgaatcacggcaacttcaacaatt-tttgttttctgcatcagGATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTACTCGCCTATTTGTACATATTTGATGTTTTTGCAAG
                                 || |  | |    | | | |||   | | |||    |||  || | | || |   |   | |||   || ||  |||   |       | ||  | ||  |   |   ||  | | ||||||      || ||   |  |  ||   |  | | ||||||||  ||||||||||||| |||||||||||| || || ||||| ||||| ||||||||  |  ||||||| | ||||||||  || | | | ||
-------------------------------gtatatcatgcaaacaaataaattaaaaaccgatttgctgatatgttttttactcatttcccttttcagttttagtttcttct---ccagaccaccttttgctctca---ttacagtgttttag----agattacaaaagttataatcttcgtatattttctgc-ccagGATGAGTACAATAAAGAAGACAATCTCTCCTTGCGGAATCTTACTCTTCTCTTATCCTATTTATGCATATTTGGAGTCTGTTCTAG

upper sequence: Vv08s0056g01280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G29170.1 (Glycine max), 3'ss of exon 5
gtttatctctccaacctggccaagaattttttcatttagtcctggaagagacatttttagctgataaattgaagtgatctatagtatctaggcatttgcattataacttcagttggcttgtagcatgtgttaattagagcttttgaatattttagttgtgaatcacggcaacttcaacaatttt-tgttttctgcatcagGATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTACTCGCCTATTTGTACATATTTGATGTTTTTGCAAG
                                 ||  | | |    | | | |||   | |  ||    | | ||| | | || |   | | | |||   || ||  |||   |     | | ||  | ||  |   |   ||  | | ||||||      || ||   |  |  |    | || | |||||||| |||||||||||||| |||||||||||| || || ||||| ||||| | ||||||  |  ||||||| | ||||||||  || | | | ||
-------------------------------gtatagaatacaaacaaataaattaaaaaccaatttgctaatgtgttttttattcgttggccttttcagttttagtttcttct---ccggatcaccttttgctctca---ttacagtgttttag----agattacaaaagttatagtcttcttatattttctgc-tcagGATGAGTACAATAAAGAAGACAATCTCTCCTTGCGGAATCTTATTCTTCTCTTATCCTATTTATGCATATTTGGAGTCTGTTCTAG
















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|28968743|gb|CB347776.1|CB347776
EST:     GGATTGACTTCAGTGCAAAGCTTCTTGCTTCCCTTGCTAAATCTTTTGAG                         GATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTA
genomic: GGATTGACTTCAGTGCAAAGCTTCTTGCTTCCCTTGCTAAATCTTTTGAGgtttatctct ... tctgcatcagGATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTA
EST: gi|28968674|gb|CB347707.1|CB347707
EST:     GGATTGACTTCAGTGCAAAGCTTCTTGCTTCCCTTGCTAAATCTTTTGAG                         GATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTA
genomic: GGATTGACTTCAGTGCAAAGCTTCTTGCTTCCCTTGCTAAATCTTTTGAGgtttatctct ... tctgcatcagGATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatattttagttgtgaatcacggcaacttcaacaatttttgttttctgcatcagGATGAGTACATTAAAGAAGACAACCTTTCATTGCGAAATCTGACTCTTCTACTCGCCTATTTGTACATATTTGATGTTTTTGCAAG
                                    tttttgttttctgc  CT-rich tract
                               aacaatttttgtttt  TA-rich tract