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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgcatgtaactgtggaatcgatttgttggtgtacaagcttccaagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag

Basic information

species Vitis vinifera
transcript Vv09s0002g02200.t01
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: AC196426.3_FGT007 (Zea mays), 5'ss of exon 20
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgcatgtaactgtggaatcgatttgttggtgtacaagcttccaagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
||||| || ||| | || ||||||||| | ||||||||||||||| ||| ||| ||||   |||| |||||||| || ||||||||| | || ||||| || | |     |  |||  ||| |    |    |  | | || ||   |   |  | ||||      |||   ||||  |||  | |  |              
GAAGCAAATAAGAGGAACAACAACTGGCTCCCACCTCCATGGGCACTTGCTGCAATGGCTATCCTTGGATTCAACGAGTTTATGACATTACTGAGgtatttctgt-----tgtctgcagaaaca---tacatgcatgccagttttggattattacttttgaccag-gctaactttt--ttacttgaataacag----------

upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA07G01230.1 (Glycine max), 5'ss of exon 21
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgcatgtaactgtggaatcgatttgttggtgtacaagcttccaagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
|| ||||||||||| || |||||||||||||| || ||||||||||| |||||| ||||  |||||||||| ||||||||||||||||||||||||| | |||   |  |||   ||    |  || | ||  |     |||||     || |  ||||||||    || | | |||| |  | |     | ||  |      
GAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTTGCTTTGGTTATCCTGGGATTTAATGAATTTATGACACTTCTAAGgtgcatgtcaac-cgtactcgtctgctgtatatttttct-----agctttggttatccttctttgtttttttcttgctcttaacttgcatcttgctcctctaataa--

upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 21
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgc---atgtaactgtggaatcgatttgttggtgtacaagcttccaagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
|| ||||||||||| || |||||||||||||| || ||||||||||| |||||| ||||  | |||||||| ||||||||||||||||||||||||| | ||||  |   |   | |||  | ||   |||  | || | |   ||||   | ||     ||  |     || | || |   |    || ||     ||       
GAGGCCAACAAGCGCAACAACAACTGGTTACCTCCCCCATGGGCAATAGTTGCTTTGGTTATTCTGGGATTTAATGAATTTATGACACTTCTAAGgtgcatgttaaccctactcatctgctgtat-atttttctagttttc---cttctctggttttatctttctcttaacttgcttcttgctcctctaacagcggctc-------

upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA15G02780.1 (Glycine max), 5'ss of exon 21
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgcatgtaactgtggaatcgatttgttggtgtacaagcttccaagattccc--ctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
||||||||||| ||||  | |||||||||||| ||||||||||| ||||| ||| || |  | || ||||| |||||||||||||||||| ||||||    |    | | || |  |   ||   |||  |    |      ||  ||||  |    || | |||     | | | |||| | ||     || |  ||       
GAAGCCAACAATCGTAGCAGCAACTGGTTACCTCCTCCATGGGCGATTGTGGCTTTGATTATTCTTGGATTTAATGAATTTATGACACTTTTAAGgtggaagccaactt-tacccatttgatatcttt-ctaaccttttcctttgaaagaaacaaggctctatttat-attcgctcttaactctccatatatcttctc-------

upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA13G42650.1 (Glycine max), 5'ss of exon 22
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgcatgtaactgtggaatcgatttgttggtgtacaagcttc--caagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
||||||||||| ||||  |   |||||||||| || |||||||| ||||| ||| || |  | || ||||| |||||||||||||||||| |||||| |  |    | | || |  |   ||   ||| |     |     |||    |  |     || | |||     |   | |||| | |||    || |  |        
GAAGCCAACAATCGTAGCAGGCACTGGTTACCTCCACCATGGGCGATTGTGGCTTTGCTTATTCTTGGATTTAATGAATTTATGACACTTTTAAGgtgcaagccaactt-tacccatttgatatctttctaaccttttttcctttggaagaacaaggctctatttat-attctctcttaactttctacctatcttct--------

upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 5'ss of exon 20
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgtttgcat-gtaactgtggaatcg-atttgttggtgtacaagcttccaagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
|| || |||| ||||   || ||||||||||| ||||||||||||||| ||||  || ||||||| |||||||| ||||| ||||| ||| |||||| | |    || | |||      |  ||  ||    || ||        |  || ||||   ||| ||| ||  |  | | |||                         
GAGGCGAACAGGCGTGGAAATAACTGGTTACCTCCTCCATGGGCAATTCTTGCATTGATCGTCCTTGGATTCAACGAATTCATGACTCTTTTAAGgtccatcaaagcttagtattcactgcttcatatccaatgatg-----atatgtaacattctgatttctttacctttttgatgtaacag----------------------

upper sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: AT3G13870.1 (Arabidopsis thaliana), 5'ss of exon 21
GAAGCCAACAAGCGTAATAACAACTGGTTACCACCTCCATGGGCAATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtact-tgtttgcatgtaactgtggaatcgatttgttgg--tgtacaagcttccaagattcccctttgtttgccgctgggttttaattatcttagcatttcttcatggcag
||||| |||   || |||||||||||| | |||||||||||||||||  ||||  |||| || || ||||| |||||||||||||| ||  ||||||||  |  |||    |  || | |||| || | |  ||  | | ||  |   |||||||||     ||   |   | || | |   |  ||  |||| ||| ||||||||
GAAGCTAACCGACGGAATAACAACTGGCTGCCACCTCCATGGGCAATCCTTGCCCTGGTTGTTCTTGGATTTAATGAATTTATGACTCTCTTAAGgtaccctccttgtccatt-cttttgaattgactcggcggctttttcatacaatcaagattcc-----gtactcactttggctcttcgtgcct--gcatctct-catggcag

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|30127826|gb|CB913165.1|CB913165
EST:     ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG                         GAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
genomic: ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgttt ... ttcatggcagGAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
EST: gi|87583837|gb|DY473232.1|DY473232
EST:     ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG                         GAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
genomic: ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgttt ... ttcatggcagGAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
EST: gi|161721258|gb|FC070023.1|FC070023
EST:     ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG                         GAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
genomic: ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgttt ... ttcatggcagGAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
EST: gi|110375865|gb|EC940885.1|EC940885
EST:     ATTGTTGCTATGGTCATCCTGGGATTCAATGAATTTATGACACTTCTAAG                         GAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
genomic: ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgttt ... ttcatggcagGAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
EST: gi|110361420|gb|EC924888.1|EC924888
EST:     ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG                         GAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
genomic: ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgttt ... ttcatggcagGAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
EST: gi|30134459|gb|CB919797.1|CB919797
EST:     ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAG                         GAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC
genomic: ATTGTTGCTATGGTCGTCCTGGGATTCAATGAATTTATGACACTTCTAAGgtacttgttt ... ttcatggcagGAATCCTTTGTATCTAGGTGTAATCTTTGTTGCTTTTCTACTCTCAAAAGC