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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatacgacttgagctgtcactggtcataaccttgttttgcattatacgagtcatttgacatagagagagagttgattgctttcggtgctgcttatctatctcacatcacatggcttcttagtgctgctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT

Basic information

species Arabidopsis thaliana
transcript AT2G01090.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G01090.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os02g33730.1 (Oryza sativa), 3'ss of exon 3
gtgaatacgacttgagctgtcactggtcataaccttgttttgcattatacgagtcatttgacatagagagagagttgattgctttcggtgctgcttatctatctcacatcacatggcttcttagtgctg--ctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT
                                                               ||  |    |  | ||||||||| |    |||  |||    ||| |    |  || ||  |    |  || |  ||   |  ||   |||||||       |||   ||||||||||| ||  ||||||||||| |||| || || ||||| ||||| ||||| || ||||||||| | ||||| ||||||  |          
---------------------------------------------------------------tattgctgtacattattgctttctgaatagctattcttctgcacctttggta-ctgctgggcctggatcttatcttatgctactctatgttgtgcaca---cagAAATGTGTCAAGAGAATTGAAGATGATGAGACTGGTCAGAAGCATTGTACTGGTCAATACTTCGATTACTGGAAATGTGTCGACAAAAAT----------

upper sequence: AT2G01090.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G122039_T07 (Zea mays), 3'ss of exon 2
gtgaatacgacttgagctgtcactggtcataaccttgttttgcattatacgagtcatttgacatagagagagagttg-attgctttcggtgctgcttatctatctcacatcacatggcttcttagtgctgctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT
                                                     |  |||  | ||| | |  | | | ||| | ||   |  |    ||   |  ||||| |    |  | || || |     |  ||||||     || | |||  ||  | |||   || ||||||||  |  |  |||||||  |||| |||||||| |||||||||||||| ||||||||||||   ||  | |||||||||          
-----------------------------------------------------tgttttaccctagggtgctaatagtattccattttttaatatgcatgcctggcacatga----gtatttttgttca----aactttaacg----gtggctgtctgttat-cagAAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGT----------

upper sequence: AT2G01090.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G122039_T05 (Zea mays), 3'ss of exon 2
gtgaatacgacttgagctgtcactggtcataaccttgttttgcattatacgagtcatttgacatagagagagagttg-attgctttcggtgctgcttatctatctcacatcacatggcttcttagtgctgctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT
                                                     |  |||  | ||| | |  | | | ||| | ||   |  |    ||   |  ||||| |    |  | || || |     |  ||||||     || | |||  ||  | |||   || ||||||||  |  |  |||||||  |||| |||||||| |||||||||||||| ||||||||||||   ||  | |||||||||||||      
-----------------------------------------------------tgttttaccctagggtgctaatagtattccattttttaatatgcatgcctggcacatga----gtatttttgttca----aactttaacg----gtggctgtctgttat-cagAAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTGTAA------

upper sequence: AT2G01090.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA15G05620.1 (Glycine max), 3'ss of exon 2
gtgaatacgacttgagctgtcactggtcataaccttgttttgcattatacgagtcatttgacatagagagagagttgattgctttcggtgctgcttatctatctcacatcacatggcttcttagtgctgctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT
                                                               |        | |||     |||  ||  ||| |    || |   ||  | |    |     |  ||||  |     | |  |  |||||     || | ||||||||  | || ||||| || | |||||| ||||| || ||||| |||||||| |||||||||||||| |||  |||| |||||||||||          
---------------------------------------------------------------tgagtgataaattgtcaaatttttgttatgcct--taattttttatttcttcaaattaagttcttgcttggccgagaaaagtaattgtttgaattgctacagGCGTGCATTAAAAGGATACATGGTGATGATTCTGGGCAGAAACACTGCACTGGACAATATTTTGATTATTGGTCTTGTATTGACAAATGT----------

upper sequence: AT2G01090.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G19380.1 (Glycine max), 3'ss of exon 2
gtgaatacgacttgagctgtcactggtcataaccttgttttgcattatacgagtcatttgacatagagagagagttgattgctttcggtgctgc-ttatctatctcacatcacatggcttcttagtgctgctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT
                                                                || || | | |||     |||  || |||| |||| ||| |   ||  | |    |     |  ||||  |     | |  |  |||||     || | ||||||||  | || ||||| || | |||||| ||||| || ||||| |||||||| |||||||||||||| |||  |||| |||||||||||          
----------------------------------------------------------------agtgataaa-ttgccaaatttttgttctgccttatttatttt-tatttcttcaaattaagttcttgcttggccgagaaaagtaattgtttaaattgctacagGCGTGCATTAAAAGGATACATGGTGATGAATCTGGGCAGAAACACTGCACTGGACAATATTTTGATTATTGGTCTTGTATTGACAAATGT----------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatggcttcttagtgctgctcagttttaacatcttgttgttgtgggtggttcagGCGTGTGTCAAGAGGATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGT
                        ttttaac  putative branch site (score: 2)
                        ttttaacat  TA-rich tract