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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcttcttttccttctagtatgcattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttactgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTTACACAGAACAATTATGG

Basic information

species Vitis vinifera
transcript Vv00s0327g00020.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G36430.1 (Glycine max), 3'ss of exon 6
gttagcttcttttccttctagtatg-cattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttactgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCT--TACACAGAACAATTATGG
||||| ||  | |  |  | |  |   ||  || | ||   | |||        |  |  ||    |  | ||| ||  |      ||| |   |   ||||||||| |||  ||    |||  | ||||||||||| ||||||||||||||| ||||||||||||| ||| | |||||||| || || |  ||  || |  | ||   |
gttagatttctcttttaattgcttaatatggtttacaagtctctatt------tttagtgaactgttaatccat-gtggcagtcataagatgtaac--ttttctgttctttgttgtaatagTTACAGGAGTTTGGGGGCTTCTAGCTCTTCACTTGGCTGATGATCCCATTCTTCCTTTCAATTACGTTTCATATGCAAATGAGTTGCAG

upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G23220.1 (Glycine max), 3'ss of exon 7
gttagcttcttttccttctagtatgcattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttactgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCT--TACACAGAACAATTATGG--------
||||| || || |  || | || |  |   ||  |      || |  |||||||  | |||||  ||      || || |  |   |  ||||    ||||||||| |||  ||    |   | |||||||||||| ||| |||| |||||| |||||||||||||| || | |||||||| || ||    ||  || |  | |||  |        
gttagatttttctt-ttatggtttaaaagtttcta------tttttaatgaact--gtaaatccatg------tgacagtcataagatgttac----ttttctgttctttgttgt---aactgttggagtttgggggcttgtagCCCTTCACTTGGCTGATGATCCTGTTCTTCCTTTCAATTACGTTCCATATGCAAATTAGTTACAGTTACAGGT

upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 6
gttagcttcttttccttctagtatgcattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttactgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGT--CTTACACAGAACAATTATGG
||||| ||  |   ||| || ||||  ||    |     |||| |  |||||||  | |||||  ||   ||  ||||        |   |  | | |||||||| ||||  ||   ||||  ||||||||||||| ||||| || |||||| |||||||||||||  || | |||||||| || ||  | ||  || |  | |||  |
gttagatttct---cttttaatatggtttaaaaatgtttattttttaatgaact--gtaaatccatgtgaca--gtca-------gaagatgta-aattttctgtgttttgttgtaacagTTACTGGAGTTTGGGGGCTTCTGGCCCTTCACTTGGCTGATGATCCCGTTCTTCCTTTCAATTACGTTCCATATGCAAATGAGTTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttcattgtcacttcttcaagcttacatagttttctgttttttactgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTTACACAGAACAATTATGG
                     agcttac  putative branch site (score: 3)
                                ttttctgttttttact  putative PPT
                                ttttctgtttttta  TA-rich tract