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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATAAGTGTTCACTGGATGTGGCTACCATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccag

Basic information

species Vitis vinifera
transcript Vv00s0181g00250.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os07g37580.2 (Oryza sativa), 5'ss of exon 5
GTCATAAGTGTTCACTGGATGTGGCTACCATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccag
|||| ||| || | || |||||  |  |  |  |||| ||  |||| |  |||||||| |||||||||||| ||||||||||| |    |||  |   |        |    |     |  |||| || ||  || |    |   |    |  |||   |  ||| |||   ||       | |  |||      |    |||   ||       |||||    | ||  |                                 
GTCACAAGCGTCCCCTTGATGTTACCTCTGTTGTGCAGGGAAAGACAAGGTTTTTTAGTGTCTTGATGCTTACTTGGGgtatgccgtgtattagcttgatgctaagcttttttctctcttaaactacacgt--ctatacccccataacact--gactgtcactctcagagcttgttctcccactatctatttctggggcactaagaga---aaacgatttatg-aactgcag--------------------------------

upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G06300.1 (Glycine max), 5'ss of exon 6
GTCATAAGTGTTCACTGGATGTGGCTACCATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccag
| | |||| |   ||| |||||||| ||||||   ||||||||||||| |||||| || || ||||||||||| |||||||      ||||| |   |||     || | | |  | | | |||    ||||| |||  ||  | || |   |    |  | | | || || ||  |||||     | |  |||  |    ||    |||||    ||||| ||   | || ||                              
GCCGTAAGCGAAAACTTGATGTGGCCACCATCACACAAGGGGAGACCAGATTTTTCAGTGTGTTGATGCTTGCATGGGgta-attataaattactgtcacca---ta-gtcgtgttttggaaac---gagtgaatgtgaaaaagcatct---aagttacttgtgtcagcatctggttctgg-----ccatgatattcgccgtaacatatttgaa-aattttaat---tttatttcag---------------------------

upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT4G21534.1 (Arabidopsis thaliana), 5'ss of exon 6
GTCATAAGTGTTCACTGGATGTGGCTACCATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctc--tggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccag
|||||||  ||||  | ||||| ||||| ||    |||||| | |||||||| || || |||||||||||||||||||||||| |   || ||| ||   || ||| ||| ||   |   |  | | |||| | |    ||    | |  ||  |  ||||| || |   ||  | |   || ||| | |||   |    ||  ||                                                            
GTCATAAACGTTCTGTAGATGTTGCTACAATTGCACAAGGGAATACCAAATTCTTCAGTGTCTTGATGCTTGCTTGGGgtatgccagtaaattctac---ttctttttgctatgtccagagttcagaaagttatttgcaaatgaaagtaatac-atgagcttgctgaacgtactctttgttgtattgattagtccatttatttcag------------------------------------------------------------

upper sequence: Vv00s0181g00250.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT4G21540.1 (Arabidopsis thaliana), 5'ss of exon 6
GTCATAAGTGTTCACTGGATGTGGCTACCATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccag
||| ||   |||| || ||||| || || ||||  ||||||   |||||||| || || |||||||||||||||||||||||| | |  | ||| ||  |||  |  ||   |||||| | |  |  || |   | |  || || |  |    |   ||||| || | | ||| |   ||| | ||||   | ||            |||  ||| ||||                                            
GTCGTACACGTTCTCTAGATGTAGCAACTATCTCACAAGGGACTACCAAATTCTTCAGTGTCTTGATGCTTGCTTGGGgtatg-caaggacttctacttctttgtagtgtagtactctagaatgtagaacttgatttgcaaatgcaagtagtggctgagcttactga-attattctgttggttgtactgagagaa------------attcattttatttcag-----------------------------------------

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|161721143|gb|FC070385.1|FC070385
EST:     CATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGG                         -TCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAA
genomic: CATCTTGCAAGGGGAGACCAAATTTTTTAGCGTCTTGATGCTTGCTTGGGgtatgaccaa ... agtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAA