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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaatttcactttattctcttggtaatccagctaattccagcccatatcatcttttactgaagaatctcatcatgaactgatctttgaaactctgtcgtagGTGGAGGCAACAATTGAACATATTTGTCGTCTTGAAGGTGGTGGGGCGATTCTTGTCTTCCTTACTGGCTGGGATGAGATTTCAAAACTGCTTGAAAAAA

Basic information

species Arabidopsis thaliana
transcript AT2G35920.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 12
gtatgaatttcactttattctcttggtaatccagctaattccagcccatatcatcttttactgaagaat-ctcatcatgaactgatctttgaaactctgtcgtagGTGGAGGCAACAATTGAACATATTTGTCGTCTTGAAGGTGGTGGGGCGATTCTTGTCTTCCTTACTGGCTGGGATGAGATTTCAAAACTGCTTGAAAAAA
  || | |   |  | | | ||||  | || |   |   ||      ||   |    ||  |||||  | |   |       | ||   |   |   |||   |||| ||||||||||||||  |||| |||||   ||||| |||||| || |||||||| || || |||||||||||||| ||||| ||||||||||| ||| 
taatcagtg--agctcaatatcttcctgattccttttcctcataatgattcaaatactttttgaagtgtgcctgtttcattttaattactatga---tgtttcagGTAGAGGCAACAATTGAGTATATATGTCGCAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAACTGCTTGACAAAC

upper sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 10
gtatgaattt-cactttattctcttggtaatc-cagctaattccagcccatatcatcttttactgaagaat-ctcatcatgaactgatctttgaaactctgtcgtagGTGGAGGCAACAATTGAACATATTTGTCGTCTTGAAGGTGGTGGGGCGATTCTTGTCTTCCTTACTGGCTGGGATGAGATTTCAAAACTGCTTGAAAAAA
   | | ||  | |  |||| || || | |      || ||       || ||| | |||    ||||  | |   |       |  |   |   |   | ||  |||| ||||||||||||||  |||| |||||   ||||| |||||| || |||||||| || || |||||||||||||| ||||| || |||||||| ||| 
-agtcagttagctcaatattttcctgattactgttcctcatgatgattcaaatccttttt----gaagtgtgcctgtttcattttagttactatgatgttttc--agGTAGAGGCAACAATTGAGTATATATGTCGGAATGAAGCTGGTGGAGCAATTCTTGTATTTCTCACTGGCTGGGATGAAATTTCTAAGCTGCTTGACAAAC

upper sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv08s0032g01230.t01 (Vitis vinifera), 3'ss of exon 9
gtatgaatttcactttattctcttggtaa-tccagctaattccagcccatatcatcttttactgaag-aatctcatca--tgaactgatctttgaaactctgtcgtagGTGGAGGCAACAATTGAACATATTTGTCGTCTTGAAGGTGGTGGGGCGATTCTTGTCTTCCTTACTGGCTGGGATGAGATTTCAAAACTGCTTGAAAAAA
       | |||  | ||    |   ||| | ||  |   | ||    ||    | | ||  | | | |||  ||  |  | |  |     || |   |   || ||||| || ||||||||||||||||||||||| | |||||| |  || || |||||||| ||||| |||||||||||||| ||||| || || ||||| ||| 
-------tctcaaatgatgacatccctaagtgcacgtcgcttca-taaatgctttttcttctttatgtaattacagtaatttagatcccacttaattgttattcatagGTTGAAGCAACAATTGAACATATTTGTCGCCATGAAGGGGAAGGAGCAATTCTTGTATTCCTCACTGGCTGGGATGACATTTCTAATCTACTTGACAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcatcttttactgaagaatctcatcatgaactgatctttgaaactctgtcgtagGTGGAGGCAACAATTGAACATATTTGTCGTCTTGAAGGTGGTGGGGCGATTCTTGTCTTCCTTACTGGCTGGGATGAGATTTCAAAACTGCTTGAAAAAA
                             aactgat  putative branch site (score: 3)
                                            ctctgtc  putative PPT
      ttttact  TA-rich tract