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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttatgttttgtagtcttaatctacttatccttgcaatgttttttaatctgcagtttctaaaaatcactctcacattcccttcgatgaagagatttgctattttagtcatggagttcttggactgattgtgtttttcctttcagGAAGTGGCTGTTAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCATTGACACAGTTCAAATCTGAA

Basic information

species Arabidopsis thaliana
transcript AT5G11850.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G11850.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA14G10790.2 (Glycine max), 3'ss of exon 7
gtgagttatgttttgtagtcttaatctacttatccttgcaatgttttttaatctgcagtttctaaaaatcactctcacattcccttcgatgaagagatttgctattt--tagtcatggagttcttggactgattgtgtttttcctttcagGAAGTGGCTGTTAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCATTGACACAGTTCAAATCTGAA
                                                  |||| |  | |  || | |  || | |   |        | |  || |||  | | |  |  |  |||   | ||||  ||| || |||   | |  |||||||| ||||| |||||||||||||||||||||||||||||||||||  |  | |||||||||||||||
-----------------------------------------------aagatcttct-tatacaagagttgctttgattgtgaaagtacttagtagtttttttgtgtgctgattttggtaat-ttggcatgaatgggttgg-catgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCGCTAGCTCAGTTCAAATCTGAA

upper sequence: AT5G11850.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA17G34730.1 (Glycine max), 3'ss of exon 6
gtgagttatgttttgtagtcttaatctacttatccttgcaatgttttttaatctgcagtttctaaaaatcactctcacattcccttcgatgaagagatttgctattttagtcatggagttcttggactgattgtgtttttcctttcagGAAGTGGCTGTTAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCATTGACACAGTTCAAATCTGAA
                                    ||  | | |     |||| || | |  || | |  || | |        |   ||||   | ||  || |||  |  || | |     || |  |    |||  | |  |||||||| ||||| |||||||||||||||||||||||||||||||||||| |  | || |||||||| |||
------------------------------------tgggaagatgaa-gatct-cattatacaagacttgctttgat-----tgtgagtgaaagtacttagtagtttttttgtgcact-----gatttttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA

upper sequence: AT5G11850.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv04s0008g01310.t01 (Vitis vinifera), 3'ss of exon 6
gtgagttatgttttgtagtcttaatctacttatccttgcaatgttttttaatctgcagtttctaaaaatcactctcacattcccttcgatgaagagatttgctattttagtcatggagttcttggactgattgtgtttttcctttcagGAAGTGGCTGTTAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCATTGACACAGTTCAAATCTGAA
                                     |  ||||  |  ||  |   | |  | |   |   |     || || ||   | ||    |||  |  ||| ||  | | ||     ||   ||| ||| |||| |  ||||| || ||||| |||||||| || | |||||||||||||||||||||||||   ||||| | ||  || 
-------------------------------------gagatgtgatagaaattctggatcatgagtgttgatgatttatcccatt---taaaactgtttattggttt-gttttagtgt-----gataaatt-tgtatttcata-cagGAGGTTGCTGTGAAGAAGTTCCTAGCCCAAGATTTCTCTGGTGATGCATTGGTTCAGTTTAGATACGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagatttgctattttagtcatggagttcttggactgattgtgtttttcctttcagGAAGTGGCTGTTAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCATTGACACAGTTCAAATCTGAA
                               gactgat  putative branch site (score: 3)
                                     ttgtgtttttcctttc  CT-rich tract
         tattttagt  TA-rich tract