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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtttgttttcagttcaaatttcaaaaactttcttacgtatgacaatgatgctagattcttaaatctttttctagGTTAATGCCTTTAGAGAACGAAGAGCACTAGCTTTAACATTAAACGATACAAAAACAGCAGTGAACAGGCTTCATCGAATCGTTGATGTATTGGTCAGCA

Basic information

species Arabidopsis thaliana
transcript AT1G53470.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G53470.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G43050.1 (Glycine max), 3'ss of exon 2
--------------------gtaagtgtttgttttcagttcaaatttcaaaaactttcttacgtatgacaatgatgctagattcttaaatct--ttttctagGTTAATGCCTTTAGAGAACGAAGAGCACTAGCTTTAACATTAAACGATACAAAAACAGCAGTGAACAGGCTTCATCGAATCGTTGATGTATTGGTCAGCA
                    ||     ||  | || |  |  || |    |   || ||||  |||   | | |    || | |||  || |   || | ||||||||||||| || ||| | |||||||| ||||| ||||| || ||||| ||||| ||||||||||  |||||||||||  |  || |  | ||  | |
tttatagcatttacataacggttttaattgatgtttacatgcaactgtttatgtttgctta--tatagtatttacaacagttccttgcatttaacttcccagGTTAATGCCTTCAGGGAAAGGAGAGCACTTGCTTTGACATTGAATGATACCAAAACGGCAGTGAACAAACTTCATCGAATGCTCAATTTTATAGTTGGAA

upper sequence: AT1G53470.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G23910.1 (Glycine max), 3'ss of exon 4
--------------------gtaagtgtttgttttcagttcaaatttcaaaaactttcttacgtatgacaatgatgctagattcttaaatct--ttttctagGTTAATGCCTTTAGAGAACGAAGAGCACTAGCTTTAACATTAAACGATACAAAAACAGCAGTGAACAGGCTTCATCGAATCGTTGATGTATTGGTCAGCA
                    ||     ||  | || |  |  || |    |   || |||| |||    | | |    ||  ||||  || |   || | |||| |||||||| || ||| | |||||||| ||||| ||||| || || || ||||| ||||||||||  |||||||||||  |  || |  | ||    |
tttatagcatgtacagaccggttttaattgatctttacatgcaactgtttatgtttgcttatgta--gtatttacagcagtatcttgcatttaacttcccagGTCAATGCCTTCAGGGAAAGGAGAGCACTTGCTTTGACATTGAATGACACCAAAACGGCAGTGAACAAACTTCATCGAATGCTCAATTTTATAGTTGCAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaaaaactttcttacgtatgacaatgatgctagattcttaaatctttttctagGTTAATGCCTTTAGAGAACGAAGAGCACTAGCTTTAACATTAAACGATACAAAAACAGCAGTGAACAGGCTTCATCGAATCGTTGATGTATTGGTCAGCA
          ttcttac  putative branch site (score: 2)
                                            tctttttct  putative PPT
                                   attcttaaatcttttt  TA-rich tract