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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag

Basic information

species Vitis vinifera
transcript Vv06s0061g01170.t01
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 17
CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag
 ||| ||  |||||||||| ||||| ||||| ||||| |||||||||||||||||  | ||    | ||| ||  | || ||     ||||||| |  ||||   | |   ||   |||   |    ||        | |||  ||  ||   ||||       || |    ||||     |||||| ||   | ||  |        
GTACTGTAGCTATTCTTCTCTCAACCTATGCCAAGATATTGATGCACACTCAACCTCCTGATGTTGGACTGCAACAACAAATCCTCACAATATTTAAAAAgtatcaaatgattcttccagctcaagctttagcgatatattaccactttatgtgttg-------ctaagctcttgttctcctcttta-cattgtattctag-------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GRMZM2G092741_T01 (Zea mays), 5'ss of exon 2
CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag
 ||| ||  |||||||||| ||||| ||||| ||||| ||||| |||||||||||  | ||    | ||| ||| | || ||     ||||||| |  |||| | | |   ||   |||   |    ||   |    |  ||  ||  || | ||||       || ||   ||||     |  || |||  || || ||        
GTACTGTAGCTATTCTTCTCTCAACCTATGCCAAGATATTGATCCACACTCAACCTCCTGATGTTGGACTGCAGCAACAAATCCTCACAATATTTAAAAAgtaacaaatgattcttccagctcaagctttagtgatatggtaccactttatatgttg-------ctaaacttttgttactcttctttacattatattccag-------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 16
CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaagtttaaccaatact-gatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag
||||  || |||||||| | |||||||||||||| ||| ||||||||| ||||||  ||||||| ||| |||||||||| || ||| ||||||| |  |||||||||      |   ||||  |  |||| ||||  | |  |||         |||      |  |   |  |  | |  |  | |||  || ||   ||| ||| ||
CTACTATTTCTATTCTTTTGTCAACATATGCTAAAATTCTGATGCACAGTCAACCACCAGACCCTGAATTACAGAATCAAATATGGACAATATTTAAGAAgtgagattttacctctgcaatgttcaatttctattattatgaattttttctatggtt------ttttatgatgtcataggttcttctaatccatttgctcat-ctttag

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GLYMA12G30520.1 (Glycine max), 5'ss of exon 16
CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag
||||  || |||||||| | |||||||||||||| ||| ||||||||| ||||||  ||||| | ||| ||||||||||||| ||| ||||||| |  |||||||||     || |||  | |  || |  | || || ||||||   |      |  | | |      |     | |  |  | |||| || ||   ||| ||| ||
CTACTATTTCTATTCTTTTGTCAACATATGCTAAAATTCTGATGCACAGTCAACCACCAGACTCTGAATTACAGAATCAGATATGGACAATATTTAAGAAgtgagat-----tttacctctgc-aatgttcaatttttattattatgattttttctattgtttttcatgatgccataggttcttctaacccatttgctcat-ctttag

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: AT5G22770.2 (Arabidopsis thaliana), 5'ss of exon 17
CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagat---aaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag
| ||  |||||||||||||||| |||||||| ||| || | |||||| |||||||| | || |||||||| || ||  |  |||||||  |||| |  ||||||||      |  ||         |  |  || ||| |  || | |   ||     ||   | |   | |||    || | ||   |||   | |||||  |||  |||
CCACCATTCCTATTCTTCTTTCCACATATGCAAAGCTTCTTATGCACGCTCAACCCCCGGATCCAGAACTGCAAAAAAAAGTTTGGGCTGTATTTAAGAAgtgagacttgctaactttgttgtccttcctcaatgttt-tgcttgtcatcatatgtactgtcttttttggtaaccaaatgaagtttcctaaatgagttttgttttcg-cag

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 16
CTACAGTTCCTATTCTTCTTTCAACATATGCTAAGATTTTGATGCACACTCAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagat---aaagtttaaccaatactgatttatatttctttttattacactagaagttgatatctcctgaaacattgtggaattctttaacacaattttgcattcttcag
| ||  |||||||||||||||| |||||||| ||| || | |||||| |||||||| | || |||||||| || ||  |  |||||||  |||| |  ||||||||      |  ||         |  |  || ||| |  || | |   ||     ||   | |   | |||    || | ||   |||   | |||||  |||  |||
CCACCATTCCTATTCTTCTTTCTACATATGCAAAGCTTCTTATGCACGCTCAACCCCCGGATCCAGAACTGCAAAAAAAAGTTTGGGCTGTATTTAAGAAgtgagacttgctaactttgttgtccttcctcaatgttt-tgcttgtcatcatatgtactgtcttttttggtaaccaaatgaagtttcctaaatgagttttgttttcg-cag

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|34543150|gb|CF511382.1|CF511382
EST:     CAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAA                         ATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTT
genomic: CAACCCTCAGACCCAGAACTACAGAATCAGATTTGGGCAATATTCAGCAAgtgagataaa ... cattcttcagATATGAGAGTTGCATTGATGTTGAGATACAGCAACGAGCTGTTGAATATTT