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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacattgaggattcttccatttatccgtaatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG

Basic information

species Arabidopsis thaliana
transcript AT1G45332.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 12
gtatcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacattgaggattcttccatttatccgtaatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG
               | ||||| |            | ||| |||  | |   |  | | || | | ||   |||      || |||          ||||| ||||||||||| ||||| ||  |||||||||| |||||||||||||||||  ||||||| || |||
------------gtttgttttgttatctgttgtatttttctaaatctatcatttgtgaactttaaagtgtaaatt------ttgatc---------gcagACAATTATTTCTGGGATGGGTGAGCTGCATTTGGATATCTATGTTGAACGCATCAGGAGAGAGTACAAG

upper sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 12
gtatcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacat-tgaggattcttccatttatccgtaatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG
                  |||  ||||  | | || ||||||  || |   || || ||||   | | ||  |||  |   |    || ||  |     |||| || |||||||| ||||||||| ||||||| || |||||||||||||||||  ||||||| ||||||
------------gttatctttaattctttg-atcattctcttt-ttaagtacaatattattgttcgtatgttgatattagtaaacttctgtggt----tagACAATCATTTCTGGAATGGGGGAACTGCATTTAGATATCTATGTTGAACGCATTAGGAGAGAGTATAAG

upper sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 7
gtatcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacattgaggattcttccatttatccgtaatg-----ggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG
                          | | |   | | | || ||    | | ||    |  ||||||   | || |  | || ||  |||||      ||  |||| || |||||||| ||||||||| ||||||| || |||||||||||||||||  ||||||| ||||||
-------------------------gttatctttaatttttttatcattctcttttaagtaaaacattattgtttgtatc-ttgattagtaatttctgtggttagACAATCATTTCTGGAATGGGGGAACTGCATTTAGATATCTATGTTGAACGCATTAGGAGAGAGTATAAG

upper sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
gtatcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacattgaggattcttccatttatccgtaatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG
|| | || ||  |   | |    ||| || ||   ||      |   |      |  |   ||||  |||     | || |   || | |  | |  ||||| ||||||||||| ||||| ||  ||||||||||||| || ||||||||||| ||||| || ||||||
gtttaatttatga---catgcatttcaca-cattccttagaggaagaagttttatcatgcctaaccatga-----catcaaa--atgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaccccattagtatttaacattgaggattcttccatttatccgtaatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG
             atttaac  putative branch site (score: 3)
       attagtatttaacatt  TA-rich tract