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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaaaatcaatttactattatttgttgatttaatatcttctcttttaatttttgttgtttactttgtatgatcaagttatggaaaccatttttcgcaaatcagacatgtagcttacattattagtctttattccttgacctaattactaaaatataatgttttctgcagGTTGCCAGAATACTCCTTTTCATATACCTGTTTTACCATATCTACTTGCACTATGATCAG

Basic information

species Vitis vinifera
transcript Vv12s0028g01000.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G41750.1 (Glycine max), 3'ss of exon 7
gtgagtaaaatcaatttactattatttgttgatttaatatcttctcttttaatttttgttgtttactttgtatgatcaagttatggaaaccatttttcgcaaatcagacatgtagcttacattattagtctttattccttgacctaattactaaaatataatgttttctgcagGTTGCCAGAATACTCCTTTTCATATACCTGTTTTACCATATCTACTTGCACTATGATCAG
                                                             | |  | ||| || ||   || || ||      | ||  |  |   | || |||  | | |  ||  | | |  |  | |   |  |||| | |||      |   |||||||||||||||||||| || ||||||||| ||||||||||| |||||||||||| |||| ||
------------------------------------------------------------atatg-tgtgtttgttcttattttgaaa------tatcatatgttgaatatatagtattc-tcgtt--tttgtcatattgggtttgcttaccagaatggtccat---ctgcagGTTGCCAGAATACTTCTGTTCATATACATGTTTTACCATGTCTACTTGCACTTTGATGAG

upper sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G14050.1 (Glycine max), 3'ss of exon 6
gtgagtaaaatcaatttactattatttgttgatttaatatcttctcttttaatttttgttgtttactttgtatgatcaagttatggaa-accatttttcgcaaatcagacatgtagcttacattattagtctttattccttgacctaattactaaaatataatgttttctgcagGTTGCCAGAATACTCCTTTTCATATACCTGTTTTACCATATCTACTTGCACTATGATCAG
                                                                     || || ||   || || || | | | | |   |  |   | || |||  |||    ||  |  | ||   | |   |  |||| |||||   |  |   |||||||||||||||||||| || ||||| ||| ||||||||||| |||||||||||| |||| ||
---------------------------------------------------------------------gtctgttcttattttgaaatatcgtatgtgatatgttgaatatatagaatactcgttt--ttgtcatgtgtgggtttgcttaccaaaatggtacat---ctgcagGTTGCCAGAATACTTCTGTTCATTTACATGTTTTACCATGTCTACTTGCACTTTGATAAG

upper sequence: Vv12s0028g01000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G03520.1 (Glycine max), 3'ss of exon 6
gtgagtaaaatcaatttactattatttgttgatttaatatcttctcttttaatttttgttgtttactttgtatgatcaagttatggaaaccatttttcgcaaatcagacatgtagcttacattattagtctttattccttgacctaattactaaaatataatgttttctgcagGTTGCCAGAATACTCCTTTTCATATACCTGTTTTACCATATCTACTTGCACTATGATCAG
||| || || ||| |  | |        ||||   ||||| || ||  | |   ||| |||| |  |||||   ||||  || || |   ||| |   |    | |   || |||   |  | ||  ||      || | | | |  | ||| ||||       |||||||||||||||||||||||  | ||| | ||| ||||||||||| ||||| |||||| ||| |||
gtgggtcaagtcattgcagt--------ttga---aatatattgtcactca---tttattgtgttatttgtggaatca--ttgtgaattgcatatcatgt---ttaagtatatagaa-atctcatccgtgcca--tcttgggcttgctaactgaaatggt---ctttctgcagGTTGCCAGAATACTTTTGTTCGTTTACATGTTTTACCATGTCTACCTGCACTTTGACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acattattagtctttattccttgacctaattactaaaatataatgttttctgcagGTTGCCAGAATACTCCTTTTCATATACCTGTTTTACCATATCTACTTGCACTATGATCAG
                              tactaaa  putative branch site (score: 1)
                                           tgttttct  putative PPT
                          taattactaaaatata  TA-rich tract