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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATGATTGCTCTTTCGTTTGTCCGTAAAGGTTCGGATCTTGTTAATGTCCGCAAGGTTCTTGGATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaaattttcacgtatggcgattgcattttatgtatattgaggtataaatctgactcttttctctttgggtttgattttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G08570.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G08570.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os04g58110.1 (Oryza sativa), 5'ss of exon 2
TGATATGATTGCTCTTTCGTTTGTCCGTAAAGGTTCGGATCTTGTTAATGTCCGCAAGGTTCTTGGATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaaattttcacgtatggcgattgcattttatgtatattgaggtataaat--ctgactcttttctctttgggtttgattttgtag---------
 || ||||||||||| ||||||||||||||||| || ||| | ||||  ||| |  |  ||||||||   ||||| ||  |||| | ||| |||||||||||   | |  ||| ||||   |        | | ||| || |   |    | |  |  || |    |||   |    |   | ||  ||           
AGACATGATTGCTCTGTCGTTTGTCCGTAAAGGATCAGATTTGGTTACCGTCAGACAACTTCTTGGACAGCATGCAAAGCGCATCAAGCTGATGTCAAAGgtttgtaatcattatcactattttttgggtcctgttaggttttcagttccacagtttgcttaagtatttaattaccaggacggttgagtgacaatacttc

upper sequence: AT5G08570.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G09310.1 (Glycine max), 5'ss of exon 2
TGATATGATTGCTCTTTCGTTTGTCCGTAAAGGTTCGGATCTTGTTAATGTCCGCAAGGTTCTTGGATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaaattttca--cgtatggcgattgcattttatgtatat-tgaggtataaatctgactcttttctctttgggtttgattttgtag--------
||| |||||||||||||| ||||| |||||||| ||||||||||||||||||||||||||||| ||  | ||||| || |  ||   | | |||||||||||| ||     |   ||  | |||     || |||  ||  || |  |    | ||   ||     | |  | ||    | || |||   ||        
TGACATGATTGCTCTTTCATTTGTTCGTAAAGGCTCGGATCTTGTTAATGTCCGCAAGGTTCTGGGGCCACATGCAAAGAATATTCAGTTGATGTCAAAGgtattttttgttgaacattcttattcaacttccataataactacaggttttttctattacttgtgatctatttttcatctgtggtttctcagttgctttg

upper sequence: AT5G08570.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G00870.2 (Glycine max), 5'ss of exon 2
TGATATGATTGCTCTTTCGTTTGTCCGTAAAGGTTCGGATCTTGTTAATGTCCGCAAGGTTCTTGGATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaaatttt-cacgtatggcgattgcattttatgtatattgaggtataaatctgactcttttctctttgggtttgattttgtag-----------
||| |||||||||||||| ||||| || ||||| || |||||||||||||||||||||||||| ||  | ||||| || |  ||   | | ||||| |||||| ||     ||   |     |    | |  | ||| | | |||| | |            |  | |  |  ||| | || |||| |             
TGACATGATTGCTCTTTCATTTGTTCGCAAAGGCTCAGATCTTGTTAATGTCCGCAAGGTTCTGGGGCCACATGCAAAGACTATTCAGTTGATGTCTAAGgtatttttttgttgaacttccttaataactagagtttttat-tattcatgcggtttctcagttgctctggcaatggctgtgttttttttttttataatttt

upper sequence: AT5G08570.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0056g00190.t01 (Vitis vinifera), 5'ss of exon 2
TGATATGATTGCTCTTTCGTTTGTCCGTAAAGGTTCGGATCTTGTTAATGTCCGCAAGGTTCTTGGATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaaattttcacgtat---ggcgattgcattttatgtatattgaggtataaatctgactcttttctctttgggtttgattttgtag--------
||| |||||||| ||||| ||||| || || || || ||||||||||||||||| ||||| || || |||||||| ||  | |||  | | ||||||||||||| | || || |||   | |   |  | || ||   ||  ||     |  | |   ||| |  | | |        |||   ||||            
TGACATGATTGCCCTTTCATTTGTACGCAAGGGCTCAGATCTTGTTAATGTCCGAAAGGTGCTCGGGTCTCATGCCAAGCGTATACAGTTAATGTCAAAGgtacatgaatatcttccattgttctgttgtttacaaaataattagtggaaattttttctctaatgcatgtgcaaaaatgttcctttttcacattacattc

upper sequence: AT5G08570.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv10s0071g01060.t01 (Vitis vinifera), 5'ss of exon 2
TGATATGATTGCTCTTTCGTTTGTCCGTAAAGGTTCGGATCTTGTTAATGTCCGCAAGGTTCTTGGATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaa-attttca----cgtatggcgattgcattttatgtatattgaggtataaatctgactcttttctctttgg-gtttgattttgtag-----
 ||||||||||||||||| || || || || || |||||||||||  |||| || ||||| || ||||| ||||||||  | |||  | | ||||||||||||  |  |  | |||||      | |  ||    ||||      | |   | | | |||    |            ||| || ||| |||| |      
CGATATGATTGCTCTTTCATTCGTGCGCAAGGGCTCGGATCTTGTCCATGTTCGTAAGGTGCTCGGATCCCATGCTAAGCGTATACAGTTAATGTCAAAGgtatgtggatcactttcaatgttctgtttcgtagacattgagaaaagaagaaaggagaaaaaaaaaaaaaaaaggactggtgtatgagtttgcacattgc

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|124972914|gb|EL046579.1|EL046579
EST:     GCTCATGTCAAAG                         GTTGAGAACCAGGAAGGTGTGATTAACTTTGATGAGATCTTGCGTGAAACA
genomic: GCTCATGTCAAAGgtacttcaaa ... gattttgtagGTTGAGAACCAGGAAGGTGTGATTAACTTTGATGAGATCTTGCGTGAAACA
EST: gi|124848657|gb|EH933094.1|EH933094
EST:     CCGCAAGGTTCTTGGTATCTCATGCTAAAAGCATAATGCTCATGTCAAAG                         GTTGAGAACCAGGAAGGTGTGATTAACTTTGA
genomic: CCGCAAGGTTCTTGG-ATCTCATGCTAAAAGCATAATGCTCATGTCAAAGgtacttcaaa ... gattttgtagGTTGAGAACCAGGAAGGTGTGATTAACTTTGA