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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtatttttaccatatagtttattggatctgatgattttttttttctttcttgaagtcttcactgactctgtaatataccaatatcctttctttttcttttcagCTCTCTGATTTTGGACTAGCTAAATGGGCCTCAACTTCCTCATCACATATAACCTGCTCTGATGTTGCTGGCACCTTCGG

Basic information

species Vitis vinifera
transcript Vv18s0001g01680.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G42390.1 (Glycine max), 3'ss of exon 7
gtactgtatttttaccatatagtttattggatctgatgattttttttttctttcttgaagtcttcactgactctgtaatataccaatatcctttctttttcttttcagCTCTCTGATTTTGGACTAGCTAAATGGGCCTCAACTTCCTCATCACATATAACCTGCTCTGATGTTGCTGGCACCTTCGG
                 |||   |  || |||   |||| ||  |||| | |      | | |  | |       ||  || |  || | ||   |  || | || |||||| |||||||||||| || |||||||| |||||||  |||||||||||||||||| | ||||||||||| ||||||||
----------------gtatttatcttttgattgaatgacttaattttgcat------aatttgtatt-------tatcatgctcatgttctgcttgattttctttagCTCTGTGATTTTGGACTGGCAAAATGGGCATCAACTTTGTCATCACATATAACCTGCACAGATGTTGCTGGAACCTTCGG

upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G09620.1 (Glycine max), 3'ss of exon 8
gtactgtatttttaccatatagtttattggatctgatgattttttttttctttcttgaagtcttcactgactctgtaatataccaatatcctttctttttcttttcagCTCTCTGATTTTGGACTAGCTAAATGGGCCTCAACTTCCTCATCACATATAACCTGCTCTGATGTTGCTGGCACCTTCGG
     ||| ||  | | |  | ||  ||| || | ||   ||||   |  ||| |  | |||     |    ||     || |   | |  |   ||||  |   ||||||||||| |||||||| ||||||||||| ||||| || |||||||||||||  ||| | ||||||||||| ||||| ||
-----gtaattc-atctttcaattggttgaatttcata--ttttgaataatttgtacatgtcaggcttaggcct----catgctgttttgttgaattttaata--cagCTCTCTGACTTTGGACTTGCTAAATGGGCATCAACCTCATCATCACATATAATTTGCACAGATGTTGCTGGAACCTTTGG

upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G12410.1 (Glycine max), 3'ss of exon 7
gtactgtatttttaccatatagtttattggatctgatgattttttttttctttcttgaagtcttcactgactctgtaatataccaatatcctttctttttcttttcagCTCTCTGATTTTGGACTAGCTAAATGGGCCTCAACTTCCTCATCACATATAACCTGCTCTGATGTTGCTGGCACCTTCGG
                 |||   |  || |||   |||| ||||  |||    |    | | || | | | |       ||    || | ||   |  || | || ||||||||||||||||||| || |||||||| ||||| |  |||||||||||||| ||| | ||||||||||| ||||| ||
----------------gtatttatcttttgattgaatgacttttaattttgaac----aatttttatttattg------atgatcatgttctacttgattttctttagCTCTCTGATTTTGGACTGGCAAAATGGGCATCAACCTTGTCATCACATATAACATGCACAGATGTTGCTGGAACCTTTGG

upper sequence: Vv18s0001g01680.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G24660.1 (Glycine max), 3'ss of exon 8
gtactgtatttttaccatatagtttattggatctgatgattttttttttctttcttgaagtcttcactgactctgtaatataccaatatcctttctttttcttttcagCTCTCTGATTTTGGACTAGCTAAATGGGCCTCAACTTCCTCATCACATATAACCTGCTCTGATGTTGCTGGCACCTTCGG
     ||| ||  | | |   |||  |||  | | ||   ||||   |  ||| |  | |||     |    ||     || |   | |  ||   ||||  |  ||||||||||| |||||||| ||||||||||| || ||  | ||||||||||||| |||| | ||||||||||| ||||| ||
-----gtaattc-atctttctgttggttgactttcata--ttttgagtcatttgtacatgtcaggcttaggcct----catgctgtttttgttgaattttgatg-cagCTCTCTGACTTTGGACTTGCTAAATGGGCGTCGACCACTTCATCACATATAATCTGCACCGATGTTGCTGGAACCTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgaagtcttcactgactctgtaatataccaatatcctttctttttcttttcagCTCTCTGATTTTGGACTAGCTAAATGGGCCTCAACTTCCTCATCACATATAACCTGCTCTGATGTTGCTGGCACCTTCGG
           cactgac  putative branch site (score: 2)
                             ccaatatcctttcttt  putative PPT
                      taatataccaatat  TA-rich tract