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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtctctctttgctcatttaagtaaaagaattatatctaaaacccacaattagttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G43810.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 16
--------------------------------------------------------------------------------------------------------gtaa-gtctctctttgctcatttaagtaaaagaattatatctaaaacccacaattagttctcatggttgttttattcgcgc------------agTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
                                                                                                         ||  || | | || |||  || |||||  | | ||     || |  |  | ||| ||     || |  |  |||  |  |            || ||||| || || ||||| |||||||| |||||| | ||||||||||||||||| || || |||
gtatgctactgcaaatactgtttataaactaacgtttgtagagtacagtagttagatatttgtggaatcaatttaatcctatgtatcttcaacaagtactgaacctagtgtttttgttcgctatttgaagtatgaaagttgctgttataggcttctatttgtatatctgctaatagtatcggtactgcttctcttctagGGATGGTGTCAGTGAAGGCCAATTCTACCAAGTTCTCCTCTATGAGTTGGATGCTATCCGCAAG

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA10G00530.1 (Glycine max), 3'ss of exon 8
-------------gtaagtctctctttgctcatttaagtaaaagaattatat-ctaaaacccacaat----tagttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
               |  | | |        ||||   | |||  | ||| | ||||   ||  ||     |||||    |    |    ||| |  ||| ||||| ||||| ||||||||||| || |||||| |||| |||||||||||||||||||| |||
agtataaatttatccagatatgtggggatgtattttgttcaaatcaatatctgctaatttccgaaacattctagtttgtgttaacgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAATTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 17
------------------gtaagtctctctttgct-catttaagtaaaagaattatatctaaaacccacaatt-agttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
                  | | | || |||      ||||  |||   |  |     | |   ||   || || |    | |  ||||    ||| |  ||| || || ||||| ||||||||||| || ||||||||||| |||||||||||||| ||||| |||
gtgtgtgcttacttcggagcatggctttctgaaaaacattctagtttgacgaaagagtttgctactggcattttaacattgaatgttgaa--atttgaacagGGACGGTGTAAGTGAAGGGCAATTTTACCAAGTTTTACTTTATGAGTTGGATGCGATTCGGAAG

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 17
--------------------gtaagtctctctt-----tgctcatttaagtaaaagaattatatctaaaacccaca-attagttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
                    | | | || |||      ||||  ||| | | ||||| |||  |     |||   | ||||    | |  ||||    ||| |  ||| ||||| ||||| ||||| ||||| || ||||||||||| |||||||| ||||||||||| |||
atgtgtgtgcttacttaggagcatggctttctgaaacatgctagtttga-tgaaagagttagtt-----accggtatattaacattgaatgttgaa--atttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 16
------gtaagtctctctttgctcatttaagtaaaagaattata---tctaaaac-ccacaattagttctca-tggttgtttt--------attcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
      ||  |    | | |  ||||| || | ||    |  ||   |  |||||     | || |||   | || |||| ||        ||| |  ||| ||||| ||||| |||||||| || || |||||| |||| |||||||||||||||||||| |||
agagatgtgggggaatgtat-ttcattcaaatcaatatctcctaattttcaaaacattctagtttgttgaaactgtttgtgtttgcgagaaatttgaacagGGATGGTGTAAGTGAAGGGCAGTTTTACCAAGTTCTACTTTATGAGTTGGATGCAATTCGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagaattatatctaaaacccacaattagttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
          atctaaa  putative branch site (score: 3)
                                         ttttattc  putative PPT
     attatatctaaaa  TA-rich tract