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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACCAGGATCACAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGGgtaattgttaactccccattagactcggtagttggtattttgatattaatagtttagatgatgaatattgttctgtttactgcag

Basic information

species Vitis vinifera
transcript Vv08s0040g02640.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os01g62080.2 (Oryza sativa), 5'ss of exon 10
GCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACCAGGATCACAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGGgta-----attgt-taactccccattagactc------ggtagttggtattttgatattaata-gtttagatgatga-atattgttctgtttactgcag--------------------
|| || ||||| ||||||||||| ||||||||||| |||||||| || ||||| |||||||| |||||||| ||||| ||||| || || |||||  | ||||     ||  | |   |  |||||   | |       || |     ||  | |||||| |  |||| | | |||  |  ||  | |  ||| | |                      
GCTATCAAGCTGATTGATTTTGGAAGTACAACATTCGAACACCAAGACCACAATTATGTGGTATCAACAAGGCATTATCGTGCCCCTGAAGTTATCCTTGgtattaacatcatatccttttccatttcccccctataaagtggaacacataattatattactgtgttttgtttatggtacctttgtttagttatttcctttctctgttttcatttgcag

upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 8
GCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACCAGGATCACAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGGgta--attgttaactcc---ccattagactcggtagttggtat---tttgatattaatagtttagatgatga-atattgttctgtttactgcag----------------------------------------
|| || ||||| |||||||||||||||||||| || ||   ||| || ||||| ||||||||||| ||||||||||| ||||||||||| |||||  | ||||  ||||  | |  |   ||   | ||   || |    | |   |||  | |  ||  |||   | |||| |     |||| | |  || |                                         
GCTATCAAGCTGATTGATTTTGGGAGTACAACTTTCGAGAGCCAAGACCACAATTATGTGGTGTCGACAAGACATTATCGTGCACCAGAAGTTATCCTTGgtataattgacatccgctgacccacacacaaagtggccaatttacctttattttctatttttttcttaatgacaccagtttctttgttttgtatttgttttttaaatctttgataaatgacaattcttgtttag

upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA03G33100.1 (Glycine max), 5'ss of exon 8
GCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACCAGGATCACAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGGgtaattgttaactccccattagactcggtagttggtattttgatattaatagtttag--atgatgaatattgttc--tgtttac-tgcag
|||||||||||||||||||| ||||||||| |||||||||| ||||||||||  ||||| || ||||||||||| || ||||||||||| ||||| || ||||||||| |   |   |   |  |    | ||| | |||  |||   ||  |  ||  || ||   | | |||   ||||| | || ||
GCCATTAAGCTCATTGATTTCGGGAGTACATCATTTGAACATCAGGATCACAGTTATGTTGTTTCAACAAGACACTATCGTGCACCAGAAGTTATCTTAGgtaattgtcattccttgaaatgtatgctcaattgctcttt--atacccatgttccagtcattatatttttcgtttgttgttttcctgtag

upper sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT3G53570.2 (Arabidopsis thaliana), 5'ss of exon 9
GCCATTAAGCTCATTGATTTTGGGAGTACAACATTTGAACACCAGGATCACAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGGgtaattgttaactcccc--attagactcggtagttggt-attttgatattaatagtttagatgatgaata--ttgttctgtttactgcag
||||| |||||||||||||| || ||||||||||||||||| || || || |||||  | || || |||||||||||||| |||||||| |||||  | |||||  ||| |   | |  |     ||  |||| || | |||||  | |   ||||   | |  | || |  |||    ||||| |||||
GCCATCAAGCTCATTGATTTCGGAAGTACAACATTTGAACATCAAGACCATAACTACATTGTATCCACAAGACATTACCGCGCACCAGAAGTTATCCTAGgtaaacgtttatgactctgacacatctacgtagatgattatttttttgt--gtagtcatggtatttaagagtttggaacgtttattgcag

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|71888823|gb|DT037878.1|DT037878
EST:     CAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGG                         GCCTTGGATGGAACTACCCTTGTGATCTATGGAGTGTAGGATGCATACTTA
genomic: CAACTATGTGGTGTCAACAAGACATTACCGTGCACCAGAGGTTATTTTGGgtaattgtta ... tttactgcagGCCTTGGATGGAACTACCCTTGTGATCTATGGAGTGTAGGATGCATACTTA