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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaaaaatagattcatatatcaacttccatgtcccccaggcttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG

Basic information

species Arabidopsis thaliana
transcript AT1G08720.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 8
gtagaaaaatagattcatatatcaacttccatgtcccccaggcttatttcttcagaatagtcactaaattccagactattgttactttc------agGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG
                 ||  | |  ||| || |   |  ||| | ||| || |   | ||  ||    |  |||  || ||| |||||      |||| |  || ||||| ||| | || |  |||  ||| |||||||||||||| ||||| ||| |||||||| |  ||||||| |||||||||||||| |||
----------------gtaagt-attttctatattttcttggcatgtttgtttatttttgtatctg--cttgagaaaatggttgctttctcttaaagGCCAAAGGAATGAATTGCCTCCATATTAGTGTACCAACAATTGTTCATCGGGATCTTAAATCACCAAACTTGCTGGTTGACAACAACTGGAATGTGAAG

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os10g29540.1 (Oryza sativa), 3'ss of exon 8
gtagaaaaatagattcatatatcaacttccatgtcccccaggcttatttcttcagaatagtcactaaattccagactattgttacttt-cagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG
              | ||   |    |||  | |   | |   || | || |||      |  |   |||      ||||   ||| | ||||| |  || ||||| ||  | || || |||  |||||||||||||||||| ||||| ||| |||||||| |  ||||||| || || ||||  ||||||
-------------gtaatg-gttggattctgtattttcaa---ttttatcatcatgtgcatgcccttattatgatttatt--cactctgcagGCCAGAGGCATGAATTGTCTTCATACTAGTGTACCGACAATTGTTCATCGGGATCTAAAATCACCAAACTTGCTGGTTGACAATAATTGGACCGTTAAG

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G37330.2 (Glycine max), 3'ss of exon 9
gtagaaaaatagattcatatatcaacttccatgtcccccaggc--ttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG-
           |  | | |||   ||   |||  |   |   |  | ||||      |  |      | |||    | |  |   | || ||||| | ||| ||||| |||||||||||||| ||||| |||||||||||||| ||||| ||  | ||||| |||||||||||||| ||||||||||||||| 
-----------gtatgaaataattacactcattcctttccaaccatcatttacgtcaataaactttcacattttgaaattctccaatttacagGCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAGG

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 9
gtagaaaaatagattcatatatcaacttccatgtcccccaggcttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG
        ||  | | ||    |  ||||| | ||  |||   | ||||      |  |      | |||    | |  |   | || ||||| | ||| ||||| |||||||||||||| ||||| |||||||||||||| ||||| ||  | ||||| |||||||||||||| |||||||||||||||
------gtatgaaataattacactccttccttttcaacca---tcatttacatcaataaactttcacattttgaaattctccaatttacagGCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAG

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 9
gtagaaaaatagattcatatatcaacttccatgtcccccaggc--ttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG
           |  | | |||   ||   |||  |   |   |  | ||||      |  |      | |||    | |  |   | || ||||| | ||| ||||| |||||||||||||| ||||| |||||||||||||| ||||| ||  | ||||| |||||||||||||| |||||||||||||||
-----------gtatgaaataattacactcattcctttccaaccatcatttacgtcaataaactttcacattttgaaattctccaatttacagGCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAG

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 8
gtagaaaaatagattcatatatcaacttccatgtcccccaggcttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG
        | | |   ||  | | ||||| ||    |  | |   ||||  |    ||  | |   |||||||||  | || |   | ||||||| ||| ||||| || || |||||||||  ||| ||||||||||| || ||| | ||  ||||||| ||  |||||||||| ||||||||||| |||
------gtacaaaacaatcaacctacttc-attcttctaatgagcattttat----atctttatctaattccaga--actgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccaggcttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG
                         cactaaa  putative branch site (score: 2)
                                             ttactttc  putative PPT
       ttatttctt  TA-rich tract