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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC

Basic information

species Arabidopsis thaliana
transcript AT5G18620.1
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 22
gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
       ||   | ||||| ||  | |      | ||  |    |   || | ||| ||  ||| ||    |  || |  |      | |||| | |||||||| ||||| ||||| ||||||||||||||||| || || || || || || |  || || |||||  | ||||| |||||||| || ||| 
-----gtatgc-tctatcataccatctc-----actttctgcacacatttgttttcaaacgtgacat--gtctaattagttgtcacatttcagCTTTGCATGGTGCATAAGCTTGGTTATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGCATGTCGCCTTTGTTCCGATTTGATTGGTTTGTCAAGTCCA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgatattgacccgatgaacttgtgat---tatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
                   |  | ||| |    || | ||   ||||  | ||||  | ||    |     |   | | || | | |   |  ||| | |||||||| || |||||||| ||||||||||||||||| || || || || || || |  || ||||||||| | ||||| |||||||| || ||| 
-----------------gtatgtttttctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattccagCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 22
gtatgacatctat-ttatcaaactctttgttgagatttcattgttattgttttattctaatat-gatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
|||  |  | ||| |  |  || | ||| ||    | |   | |   |   | || ||  ||| | | |  |    |    ||    |||  |||||||||||||| || |||||||| ||||| |||||||||||| |||||||||| ||||| ||||| ||||||||| | ||||| |||||||| ||||| |
gtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatccttctatcggtttctaaaaaaattgctataaatttacagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCAGCATTTCGAACATCACCCTTGTTTCGATTTGATTGGTTTGTCAAATCTC

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 22
gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
                |  || | ||| ||     |  |     ||  |  |  |   ||  | |  | |    ||     |    ||| |||||||||||||| || |||||||| ||||| |||||||||||| |||||||||| ||||| ||||| ||||||||| | ||||| |||||||| ||||| |
---------------gtacaatttttttttctaggtctagctccatcatccttct---atgggtttctaaaaaaattgctataaattta-cagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCAGCATTTCGAACATCACCCTTGTTTCGATTTGATTGGTTTGTCAAATCTC

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
---------------------------------gtatgacatctatttatcaaactctttgttgagat--ttcattgttattgttttattctaata------tgatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
                                 |    | || ||||| |     |   |||| || |  ||  ||  | | || || | | || |      |  | ||  |    |  ||||   | |  ||||| || ||| | || |||||||| ||||| || ||||||||||| |||||||| ||||| |  || ||||||||| | ||||| |||||||| || || |
gtgtgaaatttatttccttttgtttttatttttgcccaa-atttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgat--attgacccgatgaacttgtgattat----------cagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
||  ||  |  | | |||   ||  ||  |  |||   | ||||  ||| || || |   | |||  ||   ||   || | |  ||  |             ||||||||||||| || |||||||| ||||| |||||||||||||| |||||||| ||||| || || ||||||||| | ||||| ||||||||||| || |
gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttattgttttattctaatatgatattgacccgatgaacttgtgattatcagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC
                          tattgac  putative branch site (score: 2)
     tattgttttattctaa  TA-rich tract