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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaagaaagctttgaaaactctttaactttgatgttctttgatctcaggatttaagctaattgtgaattgtttgttatttgtgcttttaaagGTGTGTATGGTGCAGCCGAAGGCGGAAATTGATCTACAGTTTGAATCAACTAGATTAAGCACTCCTTGGGGATATGTTAGTGCAATTGCTTTATGTGTTA

Basic information

species Arabidopsis thaliana
transcript AT1G17870.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17870.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv03s0088g00320.t01 (Vitis vinifera), 3'ss of exon 2
------gtagaagaa--agctttgaaaactctt-taactttgatgttctttgatctcaggatttaagctaattgtgaattgtttgttatttgtgcttttaaagGTGTGTATGGTGCAGCCGAAGGCGGAAATTGATCTACAGTTTGAATCAACTAGATTAAGCACTCCTTGGGGATATGTTAGTGCAATTGCTTTATGTGTTA
      ||||||     | ||||    ||||   |  ||   || || | || | |  | ||||   ||  ||  || |  ||   ||||  ||  | | ||||| || ||||||||||||||||| ||||| |||||||| ||||| ||||| |   | |||||||||||||| ||| ||||| |||| |  ||||||||| 
agtgctgtagaatctccaccttttgttactcaggtttctaaaattttgtgtgtttttggtattt--tcttgtta-gactgattcactattgttgtatgtgaagGTTTGCATGGTGCAGCCGAAGGCAGAAATGGATCTACAATTTGAGTCAACCAAGCTGAGCACTCCTTGGGGTTATATTAGTTCAATAGTCTTATGTGTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatctcaggatttaagctaattgtgaattgtttgttatttgtgcttttaaagGTGTGTATGGTGCAGCCGAAGGCGGAAATTGATCTACAGTTTGAATCAACTAGATTAAGCACTCCTTGGGGATATGTTAGTGCAATTGCTTTATGTGTTA
                 agctaat  putative branch site (score: 3)
                                            tgctttt  putative PPT
                            aattgtttgttattt  TA-rich tract