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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaacttcagattttgttaatcctgttgatggccttgcttggaatttattgagtgtttatatgtttttgtgagtcag

Basic information

species Vitis vinifera
transcript Vv02s0012g02250.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os12g13170.1 (Oryza sativa), 5'ss of exon 11
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaacttcagattttgttaatcctgttgatggccttgcttggaatttattgagtgtttatatgtttttg--tgagtcag---------
|||||| | || || ||||| ||||||||||| || || ||| |||||||||||||| |||| ||||||||||||||||||  |     |    || |  || |   |||      ||    ||| | | |  || |  || |   |  | | | |          
GATGAACGGGAACTCAAAAGGCAGAGAAGAAAACAATCCAACAGGGAGTCTGCTCGCAGATCTAGGTTGCGTAAGCAGgtatttgtttgtgcatttcaagctat-actggatagaattatcttttgtagtgccttcaattgatgaagcctaacttaaattctgcag

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os12g13170.3 (Oryza sativa), 5'ss of exon 10
----------------------GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaacttcagattttgttaatcctgttgatggccttgcttggaatttattgagtgtttatatgtttttg--tgagtcag---------
                      |||||| | || || ||||| ||||||||||| || || ||| |||||||||||||| |||| ||||||||||||||||||  |     |    || |  || |   |||      ||    ||| | | |  || |  || |   |  | | | |          
TGTTGACTCTCCCATGATTCAGGATGAACGGGAACTCAAAAGGCAGAGAAGAAAACAATCCAACAGGGAGTCTGCTCGCAGATCTAGGTTGCGTAAGCAGgtatttgtttgtgcatttcaagctat-actggatagaattatcttttgtagtgccttcaattgatgaagcctaacttaaattctgcag

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA09G34170.1 (Glycine max), 5'ss of exon 12
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaa--------cttcagattttgttaatcctgttgatggcc--ttgcttggaatttattgagtgtttatatgtttttgtgagtcag
|||||||||||||||||||| || ||  | |||||||| ||| |||| ||||||||| | ||||||||||| ||||||||||        | | | | |   ||  | |||| | |||    |     |  |  |||  |   | | |  |||||| | |     
GATGAAAGAGAGCTTAAAAGGCAAAGGCGGAAGCAGTCTAACAGGGAATCTGCTCGCAGGTCCAGGTTGCGCAAGCAGgtaatggagagtcattatagtggtttccttctgtggttggttgatcataagtcacatatctaacttctgtgagtttttcttaaag--

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA16G15810.1 (Glycine max), 5'ss of exon 11
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaac------ttcagattttgttaatcct---gttgatggccttgcttggaatttattgagtg--tttatatgtttttgtgagtcag
|| |||||||||||||||||||| ||| | || ||||| || ||||||||||| ||| |||||||||| || |||||||| ||      |  |   ||| | |  | |   ||||  || | |  |||  || | |  | |   ||| | ||   ||   | ||||
GACGAAAGAGAGCTTAAAAGACAAAGACGGAAACAGTCTAATCGGGAGTCTGCACGCAGATCCAGGTTACGGAAGCAGgtgacagagagtataacctttttcatacttctggttgcaggtcataattgtcatatttcaaatccctttttttgcgctttgtactcag

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA01G01740.1 (Glycine max), 5'ss of exon 10
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaa---------cttcagattttgttaatcctgttgatggccttgcttggaatttattgagtgtttatatgtttttgtgagtcag
|||||||||||||||||||| || ||  | |||||||| ||| |||| ||||||||  | ||||||||||| ||||||||||         |   |   |   ||  | |||| | |||     | |       ||  |   | | | ||  ||| |     ||
GATGAAAGAGAGCTTAAAAGGCAAAGGCGGAAGCAGTCTAACAGGGAATCTGCTCGTAGGTCCAGGTTGCGAAAGCAGgtaatggagagtaccctatggtgatttccttctgtggttggttgatcataagtcacatctaacttctgtttgagtttttcttaaag

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA08G34280.1 (Glycine max), 5'ss of exon 11
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaac------ttcagattttgttaatcct---gttgatggccttgcttggaatttattgagtgtttatatgtttttgtgagtcag--
|| |||||||||||||||||||| ||  | |||||||| || ||||| ||||| ||| |||||||||| || |||||||| ||      |  |   ||| | |  | |   ||||  || | |  |||  || | || | |   | | |||   |||   ||    
GACGAAAGAGAGCTTAAAAGACAAAGGCGGAAGCAGTCTAATCGGGAATCTGCACGCAGATCCAGGTTACGGAAGCAGgtgacagagagtataacctttttcatacttctggttgcaggtcataattgtcatattttaaatccctttttgtgcatgttgttctcag

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT1G32150.1 (Arabidopsis thaliana), 5'ss of exon 11
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaactt---cagattttgttaatcctgttga---tggccttgcttggaatttattgagtgtttatatgtttttgtgagtcag------------
||||| |||||| ||||  |||||||| | ||||| || ||  |||| ||||||||  |||||||||||||||| |||||||| |   ||  |||  | || |   |  |   |   | ||| |   |  ||| || || | | | | ||||     ||              
GATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAGgtaacataaacatgtttcttcaagctgatctagcatcatcatgcctatcaagtat-gaatgatcaaaagcttttccttttctcttctgtgttcag

upper sequence: Vv02s0012g02250.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT2G35530.1 (Arabidopsis thaliana), 5'ss of exon 11
GATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgta---acttcagattttgttaatcctgttgatggccttgcttggaatttattgagtgtttatatgtttttgtgagtcag
|| || ||||| |||||  |||||||| | |||||||| ||  |||||||||||||  |||| ||||||||||| ||||||   |      |||| | | | |      | | || ||   | || |||||||          || ||||||| | ||
GACGATAGAGAACTTAAGCGACAGAGACGGAAGCAGTCCAATAGGGAGTCTGCTCGAAGATCAAGGTTGCGTAAACAGgtactaaacatccatttagatcacctctagcacgcccatgtgagcaaattattgacccg------gtgtttgtgatttag

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|26264477|gb|CA815540.1|CA815540
EST:     GAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAG                         GCGGAATGTGATGAGCTGGCCCAGCGTGCTGACGCTTTAAAAGAAGAGAAT
genomic: GAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaacttcag ... tgtgagtcagGCGGAATGTGATGAGCTGGCCCAGCGTGCTGACGCTTTAAAAGAAGAGAAT
EST: gi|110695407|gb|EE073392.1|EE073392
EST:     GAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAG                         GCGGAATGTGATGAGCTGGCCCAGCGTGCTGACGCTTTAAAAGAAGAGAAT
genomic: GAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaacttcag ... tgtgagtcagGCGGAATGTGATGAGCTGGCCCAGCGTGCTGACGCTTTAAAAGAAGAGAAT
EST: gi|33402006|gb|CF207633.1|CF207633
EST:     AGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAG                         GCGGAATGTGATGAGCTGGCCCAGCGTGCTGACGCTTTAAAAGAAGAGAAT
genomic: AGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGgtaacttcag ... tgtgagtcagGCGGAATGTGATGAGCTGGCCCAGCGTGCTGACGCTTTAAAAGAAGAGAAT