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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtagcataaatccccctttttagtcttgtttatgaaaatccatacttcttcgggcaatagacttaataatcttatttgaactctttctattcgtcattatgtttaattacagaattggaaaagcagatttctgcgtttgtatttgtaattttgtgttatttacatttcgtaatatctcttcccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGATTTCAACATTTGGTGATCAACTGAGGGCAGAGTTACCTTCATGCCTTCCTGTGCTTGTTG

Basic information

species Arabidopsis thaliana
transcript AT2G02560.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 17
gtctgtagcataaatccccctttttagtcttgtttatgaaaatccatacttcttcgggcaatagacttaataatcttatttgaactctttctattcgtcattatgtttaattacagaattggaaaagcagatttctgcgtttgtatttgtaattttgtgttatttacatttcgtaatatctcttcccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGATTTCAACATTTGGTGATCAACTGAGGGCAGAGTTACCTTCATGCCTTCCTGTGCTTGTTG
                                                                                                          ||| ||  |  |||| |||||   ||||||       | ||| |  |||| | || | ||||| |    ||| |  ||  | ||  |||||||| ||||||||||||||| |||||||||| ||  |  | ||||||||||| ||||| || |  ||||| |||||| |||||||||||||||||||||
---------------------------------------------------------------------------------------------------------gttagttggatgattgtaaaag---atttct-------tttttatgtttttatcttgtatacatat----ataacctttttcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTTGGCGATCATCTTAATGCAGAATTACCTGCATGCCTTCCTGTGCTTGTTG

upper sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA17G00570.1 (Glycine max), 3'ss of exon 16
gtctgtagcataaatccccctttttagtcttgtttatgaaaatccatacttcttcgggcaatagacttaataatcttatttgaactctttctattcgtcattatgtttaattacagaattggaaaagcagatttctgcgtttgtatttgtaattttgtgttatttacatttcgtaatatctcttcccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGATTTCAACATTTGGTGATCAACTGAGGGCAGAGTTACCTTCATGCCTTCCTGTGCTTGTTG
                                                                                                          ||| |   |  |||| |||||   |||  |   | ||| ||| | || |  | | || || ||      ||| |  ||  | ||  |||||||| ||||||||||||||| |||||||||| ||  |  | ||||| ||||| || || || |  ||||| |||||| |||||||||||||||||||||
---------------------------------------------------------------------------------------------------------gttagtcggatgattgtaaaag--aattcttttttatgtttttatcatat-atataatctatat------ataacctttttcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACGTTTGGCGACCATCTAAATGCAGAATTACCTGCATGCCTTCCTGTGCTTGTTG

upper sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 17
gtctgtagcataaatccccctttttagtcttgtttatgaaaatccatacttcttcgggcaatagacttaataatcttatttgaactctttctattcgtcattatgtttaattacagaattggaaaagcagatttctgcgtttgtatttgtaattttgtgttatttacatttcgtaatatctcttcccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGATTTCAACATTTGGTGATCAACTGAGGGCAGAGTTACCTTCATGCCTTCCTGTGCTTGTTG
                                                                                                                      || | | |    ||||    |||| | || |  |||||    || | | || |  |   |    ||  |     |||||||||||||||||||||||  | |||||||| ||| |  ||||||||||||||||| | || || ||||| |||||| ||||||||||||| |||||||
---------------------------------------------------------------------------------------------------------------------gttagcagaatttatttgaaggtttttcttaggcatttt----tact-atatcttatggaactctttttc-----cagGAGGTCAAGGAGTGTGCTATTTCTTGCATGGGCCTTCTCGTTTCAACATTTGGTGATAACCTCAGAGCAGAATTACCTGCATGCCTTCCTGTACTTGTTG

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|124938895|gb|EL015483.1|EL015483
EST:     CAATCTACAATGCGATAATGTCCCGCTTGACAAATCAAGATCAGGACCAG                         GAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGA
genomic: CAATCTACAATGCGATAATGTCCCGCTTGACAAATCAAGATCAGGACCAGgtctgtagca ... ccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtatttgtaattttgtgttatttacatttcgtaatatctcttcccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGATTTCAACATTTGGTGATCAACTGAGGGCAGAGTTACCTTCATGCCTTCCTGTGCTTGTTG
                                    tatctcttcccttc  CT-rich tract
         taattttgtgttattt  TA-rich tract