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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcaaaattcgcatcttttctctccaaatctctttgaattacgaaacctctgtcttgtttcgtaattgaaattgatcttgagtttgttttttgtgttatttcagTATTGGGTAAGTCAAGGGAACAAATGGTGTGAATTCTGTAAGATATGGATACAGAACAATCCAACAAGTATTAGAAACCATGACCTTGGTAAGCGTCACC

Basic information

species Arabidopsis thaliana
transcript AT1G49590.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G49590.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os06g11170.2 (Oryza sativa), 3'ss of exon 1
gtaaatcaaaattcgcatcttttctctccaaatctctttgaattacgaa-acctctgtcttgtttcgtaattgaaattgatct---tgagtttgttttttgtgttatttcagTATTGGGTAAGTCAAGGGAACAAATGGTGTGAATTCTGTAAGATATGGATACAGAACAATCCAACAAGTATTAGAAACCATGACCTTGGTAAGCGTCACC
               | |||||    |  || |   | |  | |   |  ||     ||    || | || ||   ||| | |   | | ||| |    | | || || ||||| ||||| || ||||| |||||||||||||| ||||||||||| |  |||   || || ||   ||| || ||||  |||||  | |||||||| ||| 
------------catcttctttgacatttaagttgttgtacactgtcatcacaagcatccaactttgcaagtgtttttgttataaataactttttcccctatctttttccagTACTGGGTGAGCCAAGGAAACAAATGGTGTGACTTCTGTAAGATTTACATAGCTAATAACCCGCTAAGCATCAGAACACATGAAATCGGTAAGCGCCACA

upper sequence: AT1G49590.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G080120_T02 (Zea mays), 3'ss of exon 1
gtaaatcaaaattcgcatcttttctctccaaatctctttgaattacgaaacc-tctgtcttgtttcgtaattgaaattgatcttgagtttgttttttgtgttatttcagTATTGGGTAAGTCAAGGGAACAAATGGTGTGAATTCTGTAAGATATGGATACAGAACAATCCAACAAGTATTAGAAACCATGACCTTGGTAAGCGTCACC
           || || |||| | |    | |     ||| |  |   | || | |||     ||||   | |  | | ||      | | ||   |   || |||||||||||||| || ||||| ||||||||||| || ||||||||||| |  |||   |||||| |    || || || |  ||||| ||||||||||| ||| 
-------tctgttggc-tcttatgttgttatactatgttgtaggaaacatccatttgtgcaaattcgct-tggggaataataagttctcttttgcctcccttgtttcagTATTGGGTGAGCCAAGGAAACAAATGGTGCGACTTCTGTAAGATTTATATAGCAAACAATTCCTTCAGCATCAGGACACATGAACTTGGTAAGCGCCACA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtcttgtttcgtaattgaaattgatcttgagtttgttttttgtgttatttcagTATTGGGTAAGTCAAGGGAACAAATGGTGTGAATTCTGTAAGATATGGATACAGAACAATCCAACAAGTATTAGAAACCATGACCTTGGTAAGCGTCACC
                    aattgat  putative branch site (score: 4)
                                              ttatttc  putative PPT
                                     ttttttgtgttattt  TA-rich tract