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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag

Basic information

species Vitis vinifera
transcript Vv09s0054g00370.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os04g51690.1 (Oryza sativa), 5'ss of exon 5
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
 ||||| ||  | ||| |    ||  ||||| |||| || || ||||| ||||| |||||||||||||||| |||||||||||| |||     ||||   ||||    ||| ||||       | |  | ||      | ||||  |  ||| || |    |||  |  ||    || | | | |  |  | |  ||  |  ||| |   ||| | ||| |||||  | ||||                    
CTGGGTGGCCGATTCACTAAGCTTTGACAAGGATTACGATGCAAGTGTCTTTGAAACGACCATAAGgttgccttataaggtttactatt---gttgtagtattt----tttttctt-------aaaatatttgacttctttgat--cgatgctatgtaggcagaccacattt---tttagaacataaaagtatatctagttttttctaagtttctgttttatttt--tatattcag-----------------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G128914_T02 (Zea mays), 5'ss of exon 5
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
 ||||| ||| | ||||| || ||  ||||| ||||||| || ||||||||||| |||||||||||||||||||||||||||||   |    |||     ||||||   |  |||  |     ||     |  | |   ||| |   ||   ||   | |  |||| || |   |||   |||    ||     | | |  |    | | || | |   ||||||||||| |||  || | ||          
CTGGGTGGCAGAGTCATTAGACTTTGACAAGGATTATGATGCGAGTGTTTTTGAAACGACCATAAGgttgcattataaggtttaccttt---attacagtatttgtttatcttctcatatt--agtttgttccttgcagatgtttggctgaaaaagccaatggatgcaccttc-attatgatccc-tatagaaaaataactacagctaggttgtct---aattttattttctttgtttgtattcag-------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G130889_T03 (Zea mays), 5'ss of exon 1
---------------------GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatat--gtagattgtttaatt-tgtcctttctcttgttcggaagac-cagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
                      ||||| ||  | ||||| || ||  ||||| ||||||| || ||||||||||| |||||||||||||||||||||||||||||   |   || | | |||| || | ||||     | ||| |       ||| |||  |     |    |      | |||  | ||    |    ||        | ||      |  ||    |      | |  ||||  ||||||||| |||  || | ||          
AATGCCTATGTCATATAACAGCTGGGTGGCGGAGTCATTAGACTTTGACAAGGATTATGATGCGAGTGTTTTTGAAACGACCATAAGGTTGCATTATAAGgtttacctttattatagtatttatttatatcctcatcttagtttgttccctgcagatatttggctgaaaaggccaatgctatctggatataccttcattatgatccctatacaaaacataactacagctaggttgtctaatttttgttttattttgtttgtttatcttcag-------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G130889_T01 (Zea mays), 5'ss of exon 6
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatg--tagattgtttaatt-tgtcctttctcttgttcggaagac-cagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
 ||||| ||  | ||||| || ||  ||||| ||||||| || ||||||||||| |||||||||||||||||||||||||||||   |   || | | |||| || | ||||     | ||| |       ||| |||  |     |    |      | |||  | ||    |    ||        | ||      |  ||    |      | |  ||||  ||||||||| |||  || | ||          
CTGGGTGGCGGAGTCATTAGACTTTGACAAGGATTATGATGCGAGTGTTTTTGAAACGACCATAAGgttgcattataaggtttacctttattatagtatttatttatatcctcatcttagtttgttccctgcagatatttggctgaaaaggccaatgctatctggatataccttcattatgatccctatacaaaacataactacagctaggttgtctaatttttgttttattttgtttgtttatcttcag-------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA08G23730.1 (Glycine max), 5'ss of exon 5
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
 |||||||||||||| |||||||| |||||| ||||||| || |||||||||||||| ||||||||||| | |||||||||||| | || ||    || || ||  |||| | | | | |  |||     ||||              ||   | |||    | |  |||   |||||   | ||  ||  ||  ||| |  ||  | |||||      || |  |                           
ATGGGTTGCAAACTCTTTGGATTTTAACAAGGATTATGAAGCAAGTGTTTTTGAGACAACCATAAGgttactttataaggtttactttgcag----ttgaagtt--ccttccccatttacaaaag-----ttata------------tttttgagctcatgtgttagactactgattgttttttta-atcatt--ctttttgttggtcgatttccaccaaaatccag--------------------------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 4
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
 |||||||||||||| |||||||| |||||| ||||||| || |||||||||||||| ||||||||||| | |||||| ||||| | || ||    || ||   |||| ||| |   ||   || |    ||||   ||    ||| ||       |  | |  |||  |||   ||  ||||||   ||| |      |  ||  | |||||      || |  |                           
ATGGGTTGCAAACTCTTTGGATTTTAACAAGGATTATGAAGCAAGTGTTTTTGAGACAACCATAAGgttactttataaagtttactttgcag----ttgaa---gtcccttcccc-atttacaaaa----ttatatttt----tgagctcatgtgttagacaactgatattgtttttttaatctt---tttct------ttgttggtcgatttccaccaaaatccag--------------------------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 5'ss of exon 5
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
||||||||||| ||||||||||||| ||||| ||||||| || ||| | |||||||| |||||||||| || |||  ||||||| | ||    ||||||  | |||  ||    | ||  | |    |||||     ||  ||| | |      |  |  ||||||     ||||  | | | |||||| |    |||||  | |||   | ||| | |   || |                           
GTGGGTTGCAAGCTCATTGGATTTCGACAAGGATTATGACGCCAGTATGTTTGAGACAACCATAAGgtggctttaacaggtttactgtg---gttgttt--tctgtaatta---tcgtaggaagagtcagttt--atttgcgattatcagttggtgacataagatg-----gggaacgga-tattgcatct---gcttatattctttt--tctttatctgccttcag--------------------------

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 5
GTGGGTTGCAAACTCATTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcatt-ataaggtttaatatgtagattgtttaatttgtcctttctcttgttcggaagaccagttatgggttatgatgaccttgcaatctctaaagatgaacttgggattgaaatcttgcatttttgacttatcatttttggatttttttttaattttattttattttattctttttgaaatccag
|||||| |||| |||||| |||||| ||||| ||||||  || ||| | |||||||| |||||||||||||||| |  |||||||  ||||       ||  ||| | | |   ||     |    | |   | | ||||||        || | |   |||  |   |  ||| || ||| | | |||| | ||  |    |||||    | ||| ||   ||| |                           
GTGGGTAGCAAGCTCATTAGATTTCGACAAGGATTATGCTGCCAGTATGTTTGAGACAACCATAAGgttgcatttaacaggtttaccatgt-------tttttttctacatgtactaagaagagtcatcttgtttaggttatctgttgtgtgtagt---taacaaaatatgtggtatggaagtgtggcatctgtgcttatatattttc---tctttgttggctttcag--------------------------

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|46917940|gb|CN547269.1|CN547269
EST:     GTGTTTTTGAGACGACCATAAG                         AGTTGTGGGTGGACTACTTAGTGCATATGATCTCTCAGAGGACAAACTTTT
genomic: GTGTTTTTGAGACGACCATAAGgttgcattat ... tgaaatccagAGTTGTGGGTGGACTACTTAGTGCATATGATCTCTCAGAGGACAAACTTTT
EST: gi|27583590|gb|CB006285.1|CB006285
EST:     TTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAG                         AGTTGTGGGTGGACTACTTAGTGCATATGATCTCTCAGAGGACAAACTTTT
genomic: TTGGATTTCAACAAGAATTATGAGGCTAGTGTTTTTGAGACGACCATAAGgttgcattat ... tgaaatccagAGTTGTGGGTGGACTACTTAGTGCATATGATCTCTCAGAGGACAAACTTTT