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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaatgagttgcgttggttgaaaagaaggctctaaaagttactgctatatcgctaaaaattatctgagacttgctttgtttctgatggtattgcagGCAAAGGGAATGAACTACTTACACACCAGCCACCCGACTGTTGTACATAGGGATTTAAAATCTCCAAACCTTCTTGTTGATAAAAATTGGGTTGTGAAGG

Basic information

species Arabidopsis thaliana
transcript AT5G11850.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G11850.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os02g12810.3 (Oryza sativa), 3'ss of exon 7
gtataaatgagttgcgttgg-ttgaaaagaaggctctaaaagttactgctat-atcgctaaaaattatctgagacttgctttgtttctgatggtattgcagGCAAAGGGAATGAACTACTTACACACCAGCCACCCGACTGTTGTACATAGGGATTTAAAATCTCCAAACCTTCTTGTTGATAAAAATTGGGTTGTGAAGG
               ||  | || |  |    | | |    |||   | | |    ||| |   ||||       |  |   |||| | || || ||||||||||| || ||||||||||| ||  | ||||| || ||| |||| ||| | || || ||||| ||||| ||| | || ||||||||||||||||| ||| 
---------------gtaagcttcaggaagctgttttgtttgttttcgttgttgatgcttatttttataccgtgttgaca--gtttattattgtcttgcagGCAAAAGGGATGAACTACTTGCATGCTAGCCATCCTACTATTGTGCATCGTGACTTGAAATCCCCAAATCTTTTAGTGGATAAAAATTGGGTTGTTAAG-

upper sequence: AT5G11850.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv04s0008g01310.t01 (Vitis vinifera), 3'ss of exon 9
gtataaatgagttgcgttggttgaaaagaaggctctaaaagttactgctatatcgctaaaaattatctgagacttgctttgtttctgatggtattgcagGCAAAGGGAATGAACTACTTACACACCAGCCACCCGACTGTTGTACATAGGGATTTAAAATCTCCAAACCTTCTTGTTGATAAAAATTGGGTTGTGAAGG
      || |||| |  |   |           | |    ||  |  ||||   | | ||     | |   | |      | |||  |     |||||||| ||||||||||| ||||| ||||| ||||| || ||| |||||||||| ||| | ||||||||||| || |||||||||||||| |||||||| ||| 
----gtattagtttcaatatcttgt-----ctttttctttgtcccctctatgcagttcaactcctttttctattaaa---gcttccaaattacttgcagGCCAAGGGAATGAATTACTTGCACACAAGCCATCCTACTATTGTACATAGAGATCTGAAATCTCCAAATCTCCTTGTTGATAAAAACTGGGTTGTTAAG-


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctatatcgctaaaaattatctgagacttgctttgtttctgatggtattgcagGCAAAGGGAATGAACTACTTACACACCAGCCACCCGACTGTTGTACATAGGGATTTAAAATCTCCAAACCTTCTTGTTGATAAAAATTGGGTTGTGAAGG
                                      ttctgat  putative branch site (score: 3)
            taaaaattatctga  TA-rich tract