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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagatttatgttttttgtgcttttgttctgattgtggtcttcacatatctaatgttaatttagctttcttgtggttctcttttgacttcagtaccttt...

Basic information

species Vitis vinifera
transcript Vv11s0037g00560.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0037g00560.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA02G36740.2 (Glycine max), 5'ss of exon 5
GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagatttatgttttttgtgcttttgttctgattgtggtcttcacatatctaatgttaattta--gctttcttgtggttctcttttgacttcagtaccttt----
|||||||| |||  | |||||| ||||||||  |||||||||||||  ||||| |||||||||||  | || ||  |||| || ||| ||||| |  |||  ||||| |   || |   ||| || ||     || |||||  |     ||||     ||||| |   | | | |||    |||     |||    
GCAGATATTGAACATTTGAAGCATGCTATCTATTCAGCTGTTGATGCCATGCAAGCAATGGGATCTGCTATCTGCCCTTTGCTGTCACGGgtgtg--ttacttttttaggagttcta--ctggtt-tgactcaca-atatcacactagcatttgctattttctaggcctacacatttagtatcaaactttttttct

upper sequence: Vv11s0037g00560.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA17G07980.1 (Glycine max), 5'ss of exon 4
GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagatttatgtttttt-gtgcttttgttctgattgtggtcttcacatatctaatgttaat-ttagctttcttgtggttct---cttttgacttcagtaccttt
|||||||| |||  | |||||| ||||||||  |||||||||||||  ||||| |||||||||||  | || ||  |||| || |||  |||| | |   | |||    || ||  || | |  |     |  | ||    || |   |     | ||| | || | |  |    | |||    |||  ||    
GCAGATATTGAACATTTGAAGCATGCTATCTATTCAGCTGTTGATGGCATGCAAGCAATGGGATCTGCTATCTGCCCTTTGCTGTCACAGgtgtgttacttatttaggagttctactggttttttcagcatgctgacggtcctcacactggcacttgctattttataggccaacacatttagtatcaa-ac----

upper sequence: Vv11s0037g00560.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT4G30710.2 (Arabidopsis thaliana), 5'ss of exon 5
GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagatttatgttttttgtgcttttgttctgattgtggtcttcacata--tctaatgttaatttagct--ttcttgtggttctcttttgacttcagtaccttt
|| || |  ||| || ||||    ||||| | ||| ||  | ||||| |||||||| |||||||| ||||| ||  |||||||||||| |||||||  | | |  |   ||  ||| | |  ||| |  |||| |||||  ||| | ||    |   ||  |  || || ||    ||||      |       
GCGGACACAGAATCTTTGAAAGCAGCTATGTCCTCGGCCCTCGATGTAATGCAGGCTATGGGATCGTCCATTTGGTCTTTACTCTCAAAGGTGAGACCTgtttaataaatgagttt-tccaaattatcctcttgacataactctcacgtggggtgcactgctctttatgatttgtatttgcaggtggaggag--

upper sequence: Vv11s0037g00560.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT4G30710.1 (Arabidopsis thaliana), 5'ss of exon 5
GCAGATATCGAAACTGTGAAGCTTGCTATCTGCTCAGCTGTTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagatttatgttttttgtgcttttgttctgattgtggtcttcacata--tctaatgttaatttagct--ttcttgtggttctcttttgacttcagtaccttt
|| || |  ||| || ||||    ||||| | ||| ||  | ||||| |||||||| |||||||| ||||| ||  |||||||||||| |||||||  | | |  |   ||  ||| | |  ||| |  |||| |||||  ||| | ||    |   ||  |  || || ||    ||||    |||       
GCGGACACAGAATCTTTGAAAGCAGCTATGTCCTCGGCCCTCGATGTAATGCAGGCTATGGGATCGTCCATTTGGTCTTTACTCTCAAAGgtgagacctgtttaataaatgagttt-tccaaattatcctcttgacataactctcacgtggggtgcactgctctttatgatttgtatttg----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|71887499|gb|DT036554.1|DT036554
EST:     TTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGG                         GTGGAGGAAATGAACTGTCTGGTTTCTGAACTTGCTGATGTAGCAGCACAG
genomic: TTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagattta ... tcaatcacagGTGGAGGAAATGAACTGTCTGGTTTCTGAACTTGCTGATGTAGCAGCACAG
EST: gi|71885067|gb|DT034122.1|DT034122
EST:     TTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGG                         GTGGAGGAAATGAACTGTCTGGTTTCTGAACTTGCTGATGTAGCAGCACAG
genomic: TTGATGTGATGCAGGCAATGGGATCCTCCATATGTGCTTTACTCTCAAGGgtgagattta ... tcaatcacagGTGGAGGAAATGAACTGTCTGGTTTCTGAACTTGCTGATGTAGCAGCACAG