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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttagctttaagatgatctttaagccaaagttatcacaagtttagcttttgaagaatgtgtctttgatttatgattcctttggttctgtttacttaaagGCTAGTGCCGAGTGGCTGCAAATTGATTGGATGTGGATCAGCAGTTCCAAGTCTTCTGATTTCTAATGATGATCTCGCTAAAATAGTTGATACTAATGAT

Basic information

species Arabidopsis thaliana
transcript AT1G62640.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G62640.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G44350.1 (Glycine max), 3'ss of exon 1
gcttagctttaagatgatctttaagccaaagttatcacaa--gtttagcttttgaagaatgtgtctttgatt--tatgattcctttggttctgtttacttaaagGCTAGTGCCGAGTGGCTGCAAATTGATTGGATGTGGATCAGCAGTTCCAAGTCTTCTGATTTCTAATGATGATCTCGCTAAAATAGTTGATACTAATGAT-
|  | || |   |   | | ||   |     | || ||     ||| |  |  ||| ||| ||| | || ||  ||| |||| | |  ||    |    |  ||||| ||    |  || ||||| ||  |||||||||| || || || |||  ||||| |||||||||||| |||||  | ||||| ||||||||||||||| 
gtctcgcat--ggcctagcctttgcctctgttgattactgttatttgggatcagaataatctgtttgtgtttcctatcattcgtgtaattgaagtg---tgcaggCTTGTCAGCAAAGGGTGCAAGTTAGTTGGATGTGGCTCTGCTGTGCCAGCTCTTCAGATTTCTAATGACGATCTTTCGAAAATGGTTGATACTAATGATG

upper sequence: AT1G62640.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv02s0154g00140.t01 (Vitis vinifera), 3'ss of exon 1
gcttagctttaagatgatctttaagccaaagttatcacaagtttagcttttgaagaatgtgtctttgatttatgattcctttggttctgtttactt---aaagGCTAGTGCCGAGTGGCTGCAAATTGATTGGATGTGGATCAGCAGTTCCAAGTCTTCTGATTTCTAATGATGATCTCGCTAAAATAGTTGATACTAATGAT
  ||  | || |  |||    |      |   ||         | ||| |    |||  |||  |   |||   |||||  |  |      || ||   | ||| | ||    |  ||||||||  |  |||||||||| ||||| || |||||||||| ||| |||||||||||||| || ||||| ||||| |||  ||| 
atttttcatttatttgac---tggaatgagactaaattggaaatggctatctttgaacttgttctcccttttccattcccctattctgaaataatttctacagGATTGTAAGTAAAGGCTGCAAGCTAGTTGGATGTGGCTCAGCTGTACCAAGTCTTCAGATATCTAATGATGATCTTGCAAAAATTGTTGAAACTTCTGAC

upper sequence: AT1G62640.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv00s0233g00060.t01 (Vitis vinifera), 3'ss of exon 1
gcttagctttaagatgatctttaagccaaagttatcacaagtttagcttttgaagaatgtgtctttgatttatgattcctttggttctgtttactt---aaagGCTAGTGCCGAGTGGCTGCAAATTGATTGGATGTGGATCAGCAGTTCCAAGTCTTCTGATTTCTAATGATGATCTCGCTAAAATAGTTGATACTAATGAT
  ||  | || |  |||    |      |   ||         | ||| |    |||  |||  |   |||   |||||  || |      || ||   | ||| | ||    |  ||||||||  |  |||||||||| ||||| || ||||| |||| ||| |||||||||||||| || ||||| ||||| |||  ||||
atttttcatttatttgac---tggaatgagactaaattggaaatggctatctttgaacttgttctcccttttccattcccctgttctgaaataatttctacagGATTGTAAGTAAAGGCTGCAAGCTAGTTGGATGTGGCTCAGCTGTACCAAGCCTTCAGATCTCTAATGATGATCTTGCAAAAATTGTTGAAACTTCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttttgaagaatgtgtctttgatttatgattcctttggttctgtttacttaaagGCTAGTGCCGAGTGGCTGCAAATTGATTGGATGTGGATCAGCAGTTCCAAGTCTTCTGATTTCTAATGATGATCTCGCTAAAATAGTTGATACTAATGAT
                 ctttgat  putative branch site (score: 5)
                                       ttctgttt  putative PPT
                  tttgatttatgatt  TA-rich tract