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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcgtaaaaaagagtttgagagagcttaatgcatgctgtctgcggttttaaagagttagagatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattatgcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA

Basic information

species Arabidopsis thaliana
transcript AT5G27030.2
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 19
gtaatcgtaaaaaagagtttgagagagcttaatgcatgctgtctgcggttttaaagagttagagatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattat-gcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA
                   ||| |   |||     || ||   | |  || || |   ||     ||  ||  ||| | | || || |     | ||  | | | ||||| ||   |||||||||||| ||||||||| ||||||||||| || |||||||||||||||||||| ||||||||  | ||||| ||||||||  | ||||  || ||||
---------------gtaatgataatccttctcttatcct---tactcttctatatgcttgttattacttttctgctttcagt-tgagagcagaattctgaagtttttatgattatagGCAACTGCTAGTGTTGTTCCACAGCATTGGCAGCCCAACAGTGGTCTTCTTATGACTAATGATGTCACGGGTGTCAACCTTGATGAAGCTGTTCCTTGCA

upper sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA03G39290.1 (Glycine max), 3'ss of exon 20
gtaatcgtaaaaaagagtttgagagagcttaatgcatgctgtctgcggttttaaagagttagagatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattat-gcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA
                   | |      ||  |   |  |   | |  ||||| |   ||     ||  ||    | | |  |  | |     | ||  | | | ||||| ||   |||||||||| | ||||||||| |||||||||||||| |||||||||||||||||||| ||||||||  | ||||| ||||||||  | ||||  || ||||
------------------gtaatgataattcttctcttatccttacttttttatatgcttgttattacttttcccctttcaata-gagaacagaattctgaagtttttatgattatagGCAACTGCCAGTGTTGTTCCACAGCATTGGCAACCCAACAGTGGTCTTCTTATGACTAATGATGTCGCGGGTGTCAACCTTGATGAAGCTGTTCCTTGCA

upper sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA10G29090.1 (Glycine max), 3'ss of exon 20
gtaatcgtaaa-aaagagtt--tgagagagcttaatgcatgctgtctgcggttttaaagagttagagatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattat-gcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA
|||||| |||  ||| | ||  |        ||    | | |  |||  | |||      | |    ||   ||  | | |         |    |||||  | | | ||||| ||  ||||| ||||| | ||||||||| | |||||||||||| ||||  |||||||||||||| |||||| | || ||||| ||||||||| | || | ||| ||||
gtaatcttaagcaaataattactttacatatttctcccttccgttctttgttttctctatgcttttcatttttttgttcctttcaatacagaacatatttctgaagtttttatgattacagGCTACTGCCAATGTTGTTCCACTGCATTGGCAACCCAACAACGGTCTTCTTATGACTAATGATATCTCGGGTGTCAACCTTGAAGAAGCAGTCCCTTGCA

upper sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA20G38230.1 (Glycine max), 3'ss of exon 20
gtaatcgtaaaaaagagtttgag--agagcttaatgcatgctgtctgcggttttaa--agagttagagatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattat-gcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA
|||||| |||  ||    || |   | |  ||  | | | | ||     |||||    |   ||     | | ||  | | | |  | |        |||    |  | ||||| ||  ||||| ||||| | ||||||||| | |||||||||||| |||| ||||||||||||||| |||||| | || || || ||||||||| | || |  || ||||
gtaatcttaagcaaataattaatttacatatttcttccttcagttctttgttttctctatgcttttcatttgtttgtttctttcaatatagaacagaattctgatgtt-tttatgattacagGCTACTGCCAATGTTGTTCCACTGCATTGGCAACCCAACAATGGTCTTCTTATGACTAATGATATCTCGGGCGTCAACCTTGAAGAAGCAGTACCTTGCA

upper sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 19
gtaatcgtaaaaaagagtttgagagagcttaatgcatgctgtctgcggttttaaagagttagagatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattatgcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA
      ||||     || | || | |  ||  ||| || |  ||  | | ||        ||| | |  || |   ||    ||      |  || |   ||     | ||    |||| ||| | | ||||||||| ||||||||||||||||||||||||||||||||||| |||||||| || ||||| |||| |||| | || | ||||||||
------gtaatgtt-agctagaaataagtt--tgcttgtt-cctttgttattctttgtccagaaacaatttga---ataaaatggatttctgaatctggcta-----tgttccaaagGCCACTTCCAATGTTGTTCCACAGCATTGGCAACCAAACAGTGGTCTTCTTATGACTAATGATGTCTCAGGTGTCAACCCTGAAGAAGCAGTCCCATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatagcttaatgcatgctgtgtgcggttttatttaagtactgtttattatgcagGCAACTGCTACTGTTGTTCCTCAGCATTGGCAACCAAACAGTGGTCTTCTTATGACCAATGATGTGTCTGGTGTAAACCTTGAAAACGCTGCCCCATGCA
     gcttaat  putative branch site (score: 4)
                           ttttatttaagtactg  TA-rich tract