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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag

Basic information

species Vitis vinifera
transcript Vv09s0002g02420.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 6
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
||| ||||| ||| | ||||||||||||||||| ||||| ||  |||| ||||||||| |||| |||||||||||  | || ||||||| |||||||||||||||      |||    |   || ||  ||||  |    || |  | ||| ||  || |   |  |||  || | || || ||| |      | |||   || |||  |||   |                                                      
AGGGCTGCGGTATTTGCATGAAGAATGCAGAGTTGGTTGTATAATCCATCGTGACATGAGACCAAACAACATCCTTGTTACACATGATTATGAGCCACTGgtatggtgtgctct----ccctttgcctattttagagtaatataagtttttcaatctgtt---tgggacg-ttat-atattgtttct------gatatc--atttgttctttttata-----------------------------------------------------

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G480607_T06 (Zea mays), 5'ss of exon 5
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
 || ||||| || ||||| || ||||| || || || |||||  |||| ||||||||| |||| |||||||||||  |||| |||||||| || ||||||||||   |||       |  |  ||    | |   |||||| | |||  |||  ||||     |  | || | |  |  ||   |    |  || || ||  ||||| ||                                                            
TGGGCTGCGGTACCTTCACGAGGAATGTAGGGTTGGCTGCATAATCCATCGTGACATGAGACCAAACAACATCCTTGTCACACATGATTTCGAACCACTGgtat---agtcctactttgctgattgtggtgtagtaaagtttaccat--ttgctcgtgtc---tttggcattaggaacctt---tccatataggttaaggtttctgtattg-----------------------------------------------------------

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G142068_T01 (Zea mays), 5'ss of exon 5
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaa-agt-taaacatatttgaacgtgataaataagacaattgt-gatgttattttttcaaggggtatg--gaatctgtgttttacttggtaaagat--------agcatatagaaagct--tgaccttactcctacttttgctttgattag
||| ||||| || || || ||||| || || ||||| || ||  | |||||||||||| |||| |||||||||||  |||| || ||||| || |||||||||||| |  |   |||     |||  ||  ||   | ||| | || |||| | |  ||||   ||   |      | | ||   |||  ||   |  ||||  ||    ||||   |  |  | |   |        || ||||    || |  |||  ||     |  |  |||| |||    
AGGCCTGCGCTACCTCCACGAAGAGTGTAGGGTGGGCTGTATAATACACCGTGACATGAGACCGAACAACATCCTTGTCACACACGATTTCGAACCACTGgtatgcaaaataactaaatcacttttaatacttgtgatagtgtgaatatatctaattgtgaatcattctattcccattggtgaagtttcatccgagtatatgaggagatggtgtcccatattttgacagtctcatccgagtatatgaggagatggtgaagtttacatttttgatgctgtgacag-

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA13G42760.2 (Glycine max), 5'ss of exon 8
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
|||  |||| |||||||||||||| |||||||||||||||||| |||| ||||||||||| || |||||||| || ||||| ||||||||||| ||||||||| |   || | ||   ||  |||    |||| ||  |  |    | |||  |  | ||| || | |     | |    || || |       |     ||  |    || ||||  | ||   |   | |  ||  ||| |                           
AGGGTTGCGATATCTTCATGAAGAGTGCAGAGTGGGTTGCATTATCCATCGTGACATGCGGCCTAACAACATTCTTATCACTCATGATTTTGAACCACTGgtagggttgtgttttg-cctgctttgtgcttttgca--gccaggagt-tttatagtttatatatgaaag----gcgccactacttatcttttttgcccaaaagtt----ttcacttcattaaataattgtgttaaattcttcaag-------------------------

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA15G02680.1 (Glycine max), 5'ss of exon 5
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtg-ataaataagacaattgtgat-gttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
|||  | || |||||||||||||| |||||||||||||||||| |||| ||||||||||| || |||||||| || ||||| ||||||||||| ||||||||| |   || | ||   ||  |||  | |||     ||  |    | ||  |   |  |||   ||| ||   |   |  |  || ||||||   || |  | |   |    || ||| ||||     ||                                         
AGGGTTACGATATCTTCATGAAGAGTGCAGAGTGGGTTGCATTATCCATCGTGACATGCGGCCAAACAACATTCTTATCACTCATGATTTTGAACCACTGgtacggttgtgttttg-cctgctttgtactttgc---agccagcagttttatagtttatatatgaaaggcaccagcacttatctttgtttcaaaaagttttcacttcattaaataattgttaaattcttcaag---------------------------------------

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA07G01350.1 (Glycine max), 5'ss of exon 5
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgta---tgccagtttcttaatcttatttc-cattttttcaaagttaaacatatttgaacgtgataaataagacaattgtga-tgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
 ||| | || |||||||||||||| || ||||||||||| ||| |||||||||||||| | || ||||| || ||||| || ||||||||||| || ||||||   | |   |||| |    || |    ||   | ||| |||| | |||||| ||| |  |  | ||   || |  ||| ||||  | | || |  | |                                                                          
CGGTTTACGATATCTTCATGAAGAGTGTAGAGTGGGTTGTATTATCCACCGTGACATGAGGCCAAACAATATTCTCATAACTCATGATTTTGAACCTCTGgtaggttactgctttccttcctttgtacaacacggtgtcatagttta-catatt-gaaagacaccattacttcattattgaatgttcatctctctacagttt-------------------------------------------------------------------------

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA08G20750.1 (Glycine max), 5'ss of exon 5
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
 ||| | || |||||||||||||| |||||||| ||||| ||| |||||||||||||| | || ||||| || ||||| || ||||||||||| || |||||| | || |         ||  |||| || |   | |      |||| || | | |  | ||  | || ||       |||||        |  |||| | ||| | |     ||                                                      
TGGTTTACGATATCTTCATGAAGAGTGCAGAGTAGGTTGTATTATCCACCGTGACATGAGGCCTAACAATATTCTCATAACTCATGATTTTGAACCTCTGgtaggtcact------gctttccttcctttgtacaacaccgtgtcatagttta-catattgaaagacaccatcacttcattatt--------gaatatgca-tctctctacagttt------------------------------------------------------

upper sequence: Vv09s0002g02420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: EFJ20033 (Selaginella moellendorffii), 5'ss of exon 14
AGGTCTGCGTTATCTTCATGAAGAATGCAGAGTGGGTTGCATTGTCCACCGTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattag
|| | || | ||  | |||||||| ||| ||||||| || ||||| || |||||||||||||| |||||||| ||  | || || || || |||||| ||||| |    | | ||||| |   ||| || |    | |||    |  | |||   | |    || ||      | ||| ||    || ||||   |    |  |  ||                                                              
AGCTTTGAGGTACTTACATGAAGAGTGCCGAGTGGGGTGTATTGTTCATCGTGACATGCGACCAAACAACATTCTGTTAACTCACGACTTCGAGCCAATGgtaagttcttgttttaatttctattcgatatg---atagtccggctcacttgtctgagc---atcaggtgg--gagattttggacttgcaaga--tggcaacccaatgga------------------------------------------------------------

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|30251106|gb|CB968839.1|CB968839
EST:     GTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTG                         GTTGGGGATTTTGGCTTGGCTAGGTGGCAGCCTGATGGAGACACGGGTGTG
genomic: GTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagt ... ctttgattagGTTGGGGATTTTGGCCTGGCTAGGTGGCAGCCTGATGGAGACACGGGTGTG
EST: gi|30251158|gb|CB968891.1|CB968891
EST:     GTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTG                         GTTGGGGATTTTGGCTTGGCTAGGTGGCAGCCTGATGGAGA
genomic: GTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagt ... ctttgattagGTTGGGGATTTTGGCCTGGCTAGGTGGCAGCCTGATGGAGA
EST: gi|349830548|gb|FQ416846.1|FQ416846
EST:     GTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTG                         GTTGGGGATTTTGGCCTGGCTAGGTGGCA
genomic: GTGACATGCGACCCAACAACATCCTCATCACCCATGATTTTGAGCCACTGgtatgccagt ... ctttgattagGTTGGGGATTTTGGCCTGGCTAGGTGGCA