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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgagactacttgagcaactctgttttattcagttcttggtgtttcatgtgacacagctgaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC

Basic information

species Oryza sativa
transcript LOC_Os02g53380.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G843892_T01 (Zea mays), 3'ss of exon 1
-----gtgagttgagactacttgagcaactctgttttatt----cagttcttggtgtttcatgtgacacagct-----gaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
         ||| | ||| |   | | || | ||||  ||    ||     ||  |||   |||  |     |     |||| || |||||  | || |   |   ||||||||||| | ||| |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||| |||| |||
gtgagaaaggtttatactgcaacaactacgcggtttagttactgcaccaaatgcagttctgtgttgctttttttttttgaaagtttagttctgtcatctgtgtgttagATTGAACCCAACTGATATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTGGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGATTTGTATC

upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G165961_T01 (Zea mays), 3'ss of exon 1
---------------------------------------------gtgagttgagactacttgagcaactctgttttattcagttct-tggtgtttcatgtgacacagctgaaaattcagtt--ccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
                                                ||||     || ||       | ||    || ||||||| || || || || |   | || |   | ||| ||   |  || || | ||   || |||||||| | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||| || 
gtgagaaaaaaagtacttcaacaactgcgccgttttggtgaattcaatagttatagttagttattggcgtgtgacaaatgcagttctgtgttgctttattt--taaagttattagttctgtcacctgtgttgcttatgttagGTTGAACCCAACTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGATTTGTATA

upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA20G38730.1 (Glycine max), 3'ss of exon 1
-------gtgagttgagactacttgagcaactct-gttttattcagttcttggtgtttcatgtgaca-cagctgaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
        |    |     |   |||| |  |   | |  |||  |||  || || |  |  |       |      | | || |   | |||| |    ||| || ||  | | ||| |||||||||| ||| || |||||  |  | || ||||| |||||||| ||||| ||||| ||||||||||| ||||||||  | 
ctagttatttttctttttttgtctgagaagatagagatgaattttgtttgtgttgctgtactttttggttgtcttttagtgagatgagtaatgtgc---gcagGTTTAAAGCTAATGAAATGTTGGAGATGCTAAGAGGGAAACGTTTAGTTTTTGTTGGTGATTCCCTCAATAGGAATATGTGGGAATCTCTGGTTTGTGTT

upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA03G30210.1 (Glycine max), 3'ss of exon 2
----------------------------------------------------------------------------gtgagttgagactacttgagca-actctgttttattcagttcttggtgtttcatgtgacacagctgaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
                                                                            |||| ||     |  |  |  | |||    || ||||| ||  |  | |||| | ||      |  ||||||  |||  ||  || | |||  || ||| |  ||  |   ||| || |   | |||| |||||  | ||||| ||||| || ||||||||||| |||||||||||||| ||  || ||||||| 
gtaaagtttttaacttcatgggtgtttatgtttttgtccaaaattgacaatattttgtctattttattttggtaatgtgaatttgttgtcttgtattatacttgaattgattcatttgctaat-tttcttttggggggtcccaaaatttggttgaat--tggtaata-tagGTTGGATGCGCATCGAATGCTGCAATTGTTGAGAGGGAAACGACTGGTTTTTGTTGGCGATTCGCTCAATAGGAACATGTGGGAGTCTTTGATTTGCATA

upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT5G06700.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgagttgagactacttgagcaactctgttttattcagttcttggtgtttcatgtgacacagctgaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
|| ||||  |       || ||  |||     ||| | |  || |  ||     |   | | || | |||  || || || ||||       || || ||      |    ||||||||| ||| || || |  || || || ||||| |||||||| || || ||||||||||||||||| |||||||| || 
gttagttttggtcg---gaacagttct-caaaatttaatatttagccttaaggctctgaaatctaataat--agatcaat-atgt-----gaagGTTAAATGGAGCTATATTGTTGGAGATGCTTAGAGGAAGAAGACTTGTCTTTGTGGGTGATTCACTAAATAGGAACATGTGGGAATCTCTGGTTTGTATT

upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 1
lower sequence: Vv08s0007g06680.t01 (Vitis vinifera), 3'ss of exon 1
------gtgagttgagactacttgagcaactctgttttattcagttcttggtgtttcatgtgacacagc--tgaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
       || ||||  | |  |  |   |  ||| |  ||  ||||   | |  |   | ||   |||   ||   ||| || |  ||    | |||  ||| |||||   |||| | ||||||||   | ||||||| ||||| ||||| ||||| || ||||| ||||| ||||| ||||||||||| ||||||||||| 
atcctgttgtgttgt-atttttataatgaaactgatccatctagtttaagttcctgggtttgttccagtgatgttgatttagatgaattgattgcatt-cagGTTGAATGGGAGTCATATGTTGGAACTGTTGAGGGGAAAGAGACTGGTTTTTGTGGGGGATTCTCTCAATAGGAATATGTGGGAATCTCTGGTTTGCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttggtgtttcatgtgacacagctgaaaattcagttccatgatgttcataacagATTGAACCCGAGTGACATGTTGGAGAGGCTGAGGGGGAAGAGGCTGGTGTTTGTCGGTGATTCGCTCAACAGGAACATGTGGGAATCCCTGGTTTGCATC
                        tgaaaatt  TA-rich tract