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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag

Basic information

species Vitis vinifera
transcript Vv10s0116g00020.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os03g36790.1 (Oryza sativa), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
 ||||| |||| || ||| |  || ||||||| || | ||||||||| || ||||||||||||||||| ||||||||  | || || ||||||  ||| | ||| | |||  | ||||| ||  |   |||   |         | ||||||  | | || |  |  |||          
GTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgt--aatgttgtgctcctt--tgttttgtttgatgtcttcagat-----caacttttatttactatatgtgccatcttgcag-------

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os03g36790.3 (Oryza sativa), 5'ss of exon 1
---------ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
          ||||| |||| || ||| |  || ||||||| || | ||||||||| || ||||||||||||||||| ||||||||  | || || ||||||  ||| | ||| | |||  | ||||| ||  |   |||   |         | ||||||  | | || |  |  |||          
CTTTTGAAGGTTCAATTGATCAGAATTCAGTTGCGAGTGCCTGAATTTGGTTGGACTACCCAGAAGGTTTTCCATCTGATGAACTTTGTTGTAAACGGAGgt--aatgttgtgctcctt--tgttttgtttgatgtcttcagat-----caacttttatttactatatgtgccatcttgcag-------

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G01820.2 (Glycine max), 5'ss of exon 1
---------ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatat-agtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
         |||||| || | || ||| || | ||||| || |||||||||||||| || |||||| |||| ||||| ||||||||||| ||||| |||||| |  | | | |  | | | || ||  |||| ||||| | ||   |       | || |||  |||||      |||| | |||| |||
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcat-ttcaggttctttctgtgtttctttcgcccatttttttttatttttt-----atttttatattccag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G01820.3 (Glycine max), 5'ss of exon 1
---------ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatat-agtgttgcttgatat-------tttggttatttctttcttgtgtggatgtttattatttggtttt-tgggtgaatttgtgtattgcag--
         |||||| || | || ||| || | ||||| || |||||||||||||| || |||||| |||| ||||| ||||||||||| ||||| |||||| |  | | | |  | | | || |       |||   | ||||||||     |   | |||||| |||  |||| |     | |  ||| | ||  |  
GCTCTGTAGATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcatttcaggttctttctgtgtttctttcgcccatttttttttattttttatttttatattccagtgcgtgcagtggtgtt

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA17G01820.1 (Glycine max), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatat-agtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
|||||| || | || ||| || | ||||| || |||||||||||||| || |||||| |||| ||||| ||||||||||| ||||| |||||| |  | | | |  | | | || ||  |||| ||||| | ||   |       | || |||  |||||      |||| | |||| |||
ATTCAATTGGTTAGAATTCAAGTTAGAGTACCTGAGTATGGTTGGACTACTCAGAAGATTTTTCATCTCATGAACTTCATTGTCAACGGAGgttagctctcaattcttcctcat-ttcaggttctttctgtgtttctttcgcccatttttttttatttttt-----atttttatattccag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA07G38920.2 (Glycine max), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
               |||||| | ||||| || |||||||| ||||| ||||||||  |||| ||||| ||||||||||| ||||| ||||||    | |     | |||  | |||  |  || ||| |   ||||     |     ||||  |||||   | | ||| | ||||||||
--------------AATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAGgtttgctct--caattcttcctctttcagg-atctctgt---gtgtttgattcggcgatttattttttt--ttattttttatattgcag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA07G38920.1 (Glycine max), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
|||||| || | || |||||| | ||||| || |||||||| ||||| ||||||||  |||| ||||| ||||||||||| ||||| ||||||    | |     | |||  | |||  |  || ||| |   ||||     |     ||||  |||||   | | ||| | ||||||||
ATTCAATTGGTCAGAATTGAAGTTAGAGTACCTGAGTATGGCTGGACTACGCAGAAAATTTTTCATCTCATGAACTTCATTGTCAACGGAGgtttgctct--caattcttcctctttcagg-atctctgt---gtgtttgattcggcgatttattttttt--ttattttttatattgcag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G21790.1 (Arabidopsis thaliana), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaa-atatagtgttgc--ttgatattttggttatttctttct-tgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag--------
 ||||||||||||||||  || |||||||||| |||||||||||||| || |||||||| || ||||||||||||||  ||||||||||||||||  ||   ||||| |  ||||    ||| |    | ||| | | |||       | |    |  | ||| | ||||||| | | |||           
GTTCAACTGATAAGGATCCAAATGAGAGTGCCTGAGTATGGTTGGACTACTCAGAAGGTGTTTCATCTTATGAACTTTGTCGTCAATGGAGgtgattattgtgtgtttctattgaccaattgatagggtttttgtgtttgtcagcacctttgggattatgttttgttgaatttctctgttgtgtgtgtgcag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: PP1S237_67V6.1 (Physcomitrella patens), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggat------gtttattatttggtt--tttgggtgaatttgtgtattgcag--------------------
 | ||||||||| |||| ||||||||||| || ||||| || ||||| || ||||| || ||||||||  ||||||| || || ||||||||||| | || |||    | ||| |||  ||   || ||| |||| |   |       ||| | ||||  ||  |   | |    | | || ||  |                     
GTGCAACTGATACGGATAGAACTGAGAGTTCCGGAGTACGGGTGGACTACTCAGAAAGTCTTCCATCTGTTGAACTTTATTGTAAATGGAGgtgaga-attgtggaaatcgat-tttcagtccctttttttttgttttttttaatccatttctgatttatttcgtcctgatcttctggggtcttttattgtgttgtgttgtgttgcag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: PP1S295_28V6.1 (Physcomitrella patens), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttgg-ttatttctttcttgtgtggatgtttattatttggtt-tttgggtgaattt---gtgtattgcag
 | ||||||||| ||||     |  | |  ||||||||||||||||| || ||||| || ||||||||  |||| |||||||| ||||||||||   ||  |||    |   | |   |  |||| |      |   |  || | |||    || |  ||| | | |||||   |||||||||||
GTGCAACTGATACGGATAAGGTTTCGCGCTCCAGAGTATGGTTGGACTACACAGAAAGTCTTCCATCTCTTGAATTTCATCGTTAATGGAGgtgcg-tactgtgcgaatctttttccagccttatatgggatgtccctacatctatatgtgctgatcatttcgatcaatttctggtgtattgcag

upper sequence: Vv10s0116g00020.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: EFJ30530 (Selaginella moellendorffii), 5'ss of exon 2
ATTCAACTGATAAGGATTGAACTGAGAGTGCCAGAGTATGGTTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatatagtgttgcttgatattttggttatttctttcttgtgtggatgtttattatttggtttttgggtgaatttgtgtattgcag
|| ||||| ||  |||| ||  |  | || || |||||||| ||||||||||||||||| |||||| |  |||| ||| | || ||||||||||| ||       |  | ||  ||| | ||  |   |||   ||                                            
ATACAACTCATCCGGATCGAGATTCGCGTCCCCGAGTATGGCTGGACGACGCAGAAGGTCTTCCATTTGCTGAATTTCCTTGTAAATGGAGgtgagattcttccatcttagaattttggattgatctcttcgcttgctag----------------------------------------

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|161706415|gb|FC057579.1|FC057579
EST:     TTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAG                         TGCGGGCAATCGTGTTTGGGTTTCACAAGCAAGTCTTTGTTTTGCATCCCA
genomic: TTGGACGACGCAGAAGGTTTTCCATCTTATGAACTTCATCGTCAATGGAGgtgaaatata ... tgtattgcagTGCGGGCAATCGTGTTTGGGTTTCACAAGCAAGTCTTTGTTTTGCATCCCA