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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATTgtaagttgtaaattttatttttctaattgatgtgcctattttgatgtttcttgtatgtgttcaattgtgaaggatttgatgattagaattggtatatggttgttgatcatccttcaatgcctcag

Basic information

species Vitis vinifera
transcript Vv01s0011g06120.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g06120.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os01g68810.1 (Oryza sativa), 5'ss of exon 8
TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATTgtaagttgtaaatt-ttatttttctaattgatgtgcctattttgatgtttcttgtatgtgttcaattgtgaaggatttgatgattagaattggtatatggttgttgatcatccttcaatgcctcag
||||| ||||| || ||||| ||||||||||| ||||| ||||||||||| |||| | | ||  | |     |  ||| | |||  ||| |  ||| |   | | | ||   |  |  ||| || |  ||||    |||  | |||   || |                     
TCATTGATTGGGCATTTTGACCTGGACCCAAATCGTGTGTTTGATATTgtgagttttgatttgctgtccacttttttgttatgc--attgtactgtgt---gaaagcgtgttaccg-aaagcatgtagtgat-gttattcttgtatt-ctgctag-------------------

upper sequence: Vv01s0011g06120.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA05G34330.1 (Glycine max), 5'ss of exon 8
TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATTgtaagttgtaaattttatttttctaattgatgtgcctattttgatgtttcttgtatgtgttcaattgtgaaggatttgatgattagaattggtatatggttgttgatcatccttcaatgcctcag
||||||||||| || |||||| |||| ||||| ||||| ||||||||||||||||| |   | | |||   | |||  | |   || ||  |  |||||  |||    |   |  |  | | |||  | |  |  | || | |||| ||  | |                   
TCATTAATTGGCCATTTTGATTTGGATCCAAATCGTGTTTTTGATATTgtaagttgga---tctttttgattgatttttattattaattc-acatttct-atataaagtttttgtttcatgttttattta--actactgatgtatgttttatcag------------------

upper sequence: Vv01s0011g06120.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT1G24706.1 (Arabidopsis thaliana), 5'ss of exon 9
TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATTgtaagttgtaaattttatttttctaattgatgtgcctattttgatgtttcttgtatgtgttcaattgtgaaggatttgatgattagaattggtatatggttgttgatcatccttcaatgcctcag
||||||||||| || ||||| ||||| ||||||||||| || || |||||||||| | | | ||  || | | ||   | ||     |||||| || | |  | |  |  |  |||       ||   |||||| | |  | ||      ||  |  |   | |||       
TCATTAATTGGGCATTTTGACCTGGATCCAAACCGTGTTTTCGACATTgtaagttttcactgttgcttctgtcatatttttg-----tttgatattgcata-acgcatcaatctgtc-----cttcccgattagtaataatgtac---cctttgtttttgatgaatag-----

upper sequence: Vv01s0011g06120.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S80_87V6.1 (Physcomitrella patens), 5'ss of exon 8
TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATTgtaagttgtaaattttatttttctaattgatgtgcctattttgatgtttctt-gtatgtgttcaattgtgaa--ggatttgatgattagaattggtatatggttgttgatcatccttcaatgcctcag
|| || || || || ||||||||||||||||| ||||||||||||||||||||          ||  ||||   || || |||  |   ||  |||||   | |||  | ||||| | |     ||||||| | | ||      | |  ||    || |                 
TCGTTGATCGGTCATTTTGATCTGGACCCAAATCGTGTCTTTGATATTgtaagca--------tacctttcc--ttcatttgcaaacactggggtttcaaaggatgcctccaatttttattcaaatttgattactgga--catcacaccgtgtgggaacg----------------

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|34549370|gb|CF517602.1|CF517602
EST:     TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATT                         GTTTTGGAATGTTTTGAACATCAGCCTGATAACAGTGTCTTCTTGGACCTG
genomic: TCATTAATTGGACACTTTGATCTGGACCCAAACCGTGTCTTTGATATTgtaagttgta ... aatgcctcagGTTTTGGAGTGTTTTGAACATCAGCCTGATAACAGTGTCTTCTTGGACCTG