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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGCTGGATACATTTAATGCAGCAATTGTTTCTCCAATTTATTATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAGgtagattgctgaatctatttacttggtgttgtttctgaagctgcattatcgggttcttatgattacaagaaataatgagcataaatcttattctttgcatgtgctctgcag

Basic information

species Vitis vinifera
transcript Vv03s0038g01940.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g01940.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os06g50180.1 (Oryza sativa), 5'ss of exon 7
GCGCTGGATACATTTAATGCAGCAATTGTTTCTCCAATTTATTATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAGgtagattgctgaatctatttacttggtgttgttt-ctgaagctgcattatcgggttcttatgattacaagaaataatgagcataaatcttattctttgcatgtgctctgcag
|| |||||||| ||| ||  |||  |||||||||||||||||||||| ||||| || ||||| || |||   ||||||| ||| ||||||||||||||      |||  |||||   ||| | |||   |||  |||     | || |      |    || ||  ||||     | | | | |      |              
GCACTGGATACCTTTGATTTAGCTGTTGTTTCTCCAATTTATTATGTAATGTTTACGACTCTTACAATAGTGGCAAGTGGAATTATGTTCAAGgtaga--aacaaat--atttaa--ggtttagttaattgagactgatcccttggatg-----gggctcacgacttaattcatcttactatcaaatgcag--------------

upper sequence: Vv03s0038g01940.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA12G03390.1 (Glycine max), 5'ss of exon 7
GCGCTGGATACATTTAATGCAGCAATTGTTTCTCCAATTTATTATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAGgtagattgctgaatc--tatttacttggtgttgtttctgaagctgcattatcgggttctta-tgattacaagaaataatgagcataaat-cttattctttgcatgtgctctgcag
|| ||||||||||| |||||  |||||||||||||  | |||||||| |||||||||||||| ||||| | ||| |||||||||||||| ||||||   |  |  ||   |||||  ||| |    ||  |||     ||   |    || ||  |||  | | || || |  ||| | | |  ||| | |  |              
GCTCTGGATACATTCAATGCCACAATTGTTTCTCCTGTATATTATGTAATGTTCACAACTCTTACTATTATTGCCAGTGCAATAATGTTTAAGgtatgataatagattcatatttctttgattcatttggtgatatctcaaacttttctttttgctgaaaataggatatgacaagcttgactatttactttcag--------------

upper sequence: Vv03s0038g01940.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA11G11230.1 (Glycine max), 5'ss of exon 3
GCGCTGGATACATTTAATGCAGCAATTGTTTCTCCAATTTATTATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAGgtagattgctgaatctatttacttggtgttgtttctgaagctgcattatcgggttcttatgattac-aagaaataatgagc-ataaatcttattctttgcatgtgctctgcag
|| ||||||||||| |||||  |||||||||| ||  | |||||||| |||||||| ||||| ||||| | ||| | |||||||||||| ||||||   |  |  |   ||||  ||     | || || | |    ||  ||    | || |  || |  |  ||||       | |||  | | | ||| | |           
GCTCTGGATACATTCAATGCCACAATTGTTTCGCCTGTATATTATGTAATGTTCACCACTCTTACTATTATTGCCACTGCAATAATgtttaaggtatgataatatactcattttttt-----tattccttaggtgatatc-tcaaacttttctttttgctgaacaataggatatgacaaacttgactgtttactttcag-------

upper sequence: Vv03s0038g01940.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: PP1S49_181V6.2 (Physcomitrella patens), 5'ss of exon 7
GCGCTGGATACATTTAATGCAGCAATTGTTTCTCCAATTTATTATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAGgtagattgctgaatctatttact-tggtgttgtttctgaagctgcattatcgggttcttatgattacaagaaataatgagcataaatcttattctttgcatgtgctctgcag
|| ||||| ||||||||  | |||||||||||||| || ||||| |||||||||||| |  |||| ||    || ||||| || |||||||||||   | |||||  ||| |  |  |  |    ||    ||| |           |   | |  ||  ||| |    || | | |    | || | |  ||            
GCCCTGGACACATTTAACACGGCAATTGTTTCTCCTATATATTACGTCATGTTCACATCATTGACCATCCTGGCGAGTGCTATCATGTTCAAGgtttgt-gctgacgctactagcaatcctaccattgtcaaagtttagagcaacaatatctgtttttctaagtaggtctgtgaagatgattgatccgt-acacc----------

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|37189643|gb|CF608992.1|CF608992
EST:     ATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAG                         GATTGGTCAGGTCAGAATGCAAGCAGCATAGCTTCAGAGATATGTGGATTC
genomic: ATGTCATGTTCACAACTCTGACTATAAGTGCAAGTGCAATAATGTTCAAGgtagattgct ... tgctctgcagGATTGGTCAGGTCAGAATGCAAGCAGCATAGCTTCAGAGATATGTGGATTC