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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgcattggcttgttttgggtcaggaactgtgacgaggttctgtcacttagtctcatgcgtttctctattttattgtatcgcaaaagataatgtgtttgatattgtagGTTGAGATCGCCGATATTCCTACGGATACTAAGGACAGAGATGAGATACTTGAAAGTGAATTCTTTGATACAAGGCAAGCATTCCTGAGTCTATGTCAAG

Basic information

species Arabidopsis thaliana
transcript AT1G16710.2
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 3'ss of exon 14
gtaagttgcattggcttgttttgggtcaggaactgtgacgaggttctgtcacttagtctcatgcgtttctctattttattgtatcgcaaaagataatgtgtttgatattgtagGTTGAGATCGCCGATATTCCTACGGATACTAAGGACAGAGATGAGATACTTGAAAGTGAATTCTTTGATACAAGGCAAGCATTCCTGAGTCTATGTCAAG
                        || |   ||||     |  |||| |  |||  |   |   |   |   ||  ||   || || | ||  | ||   ||  ||| | |||||||| || |  |   | || |  ||||| ||||| |||||||| || || ||||||||||| ||||| || ||||| || ||||| ||||| |||||||
------------------------gtaactgactgaacttatattctctt-cttgttgagaaaaggagcaa-atagtaac-taacgtataacttgatcc-ttccatactttagGTTGACATTGTTGGGTTGCCCAAAGATACCAAGGATAGAGATGATATTCTGGAAAGTGAATTTTTTGACACCAGGCAGGCCTTCCTTAGTCTCTGTCAAG

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 14
gtaagttgcattggcttgttttgggtcaggaactgtgacgaggttctgtcacttagtctcatgcgtttctctattttattgtatcgcaaaagataatgtgttt--gatattgtagGTTGAGATCGCCGATATTCCTACGGATACTAAGGACAGAGATGAGATACTTGAAAGTGAATTCTTTGATACAAGGCAAGCATTCCTGAGTCTATGTCAAG
                  || |||  |    | | ||| | | |    ||  ||  |  |     |  |  ||    ||  ||| | ||       |   |||  | | |||||||| || ||  | ||| | ||| | ||||| ||||||| ||| ||||| ||||| |||||||||||||| || ||||| ||||| |||||||| || || |
-------------ataaattatggagctcataatttgatgtgatgtattcttttgatagctaaaat--cagtaaaaaatgatattggaattttccgtacctttatgttcttgtagGTAGAAATTACTGATGTACCTGCCGATACGAAGGACAAAGACGAGATTCTTGAGAGTGAATTCTTTGACACTAGGCAGGCATTTCTGAGTCTCTGCCAGG

upper sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 13
gtaagttgcattggc--ttgttttgggtcaggaactgtgacgaggttctg-tcactta-------gtctcat--gcgtttctctattttattgt-atcgcaaaagataatgtgtttgatattgtagGTTGAGATCGCCGATATTCCTACGGATACTAAGGACAGAGATGAGATACTTGAAAGTGAATTCTTTGATACAAGGCAAGCATTCCTGAGTCTATGTCAAG
|||||||  ||   |  ||  ||    |    || | |    | ||| || |||  ||       ||  |||    | || | |    |||| | |||  ||||   |   || |  |   || ||||||| |||  |||  | ||| | ||||||||||| |  |||||||| || || |||||||||||||| || || || ||||| |||||||| |||||||
gtaagttctataatccattagttaatatagttaatttttgttatgttttggtcaactatttgaaggttacatcaatgcttatttgcaatattctgatcagaaaattgagcttgctaaaccctgcagGTTGAAATCAACGACGTACCTTCAGATACTAAGGATAAGGATGAGATTCTGGAGAGTGAATTCTTTGACACCAGACAGGCATTTCTGAGTCTTTGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgcgtttctctattttattgtatcgcaaaagataatgtgtttgatattgtagGTTGAGATCGCCGATATTCCTACGGATACTAAGGACAGAGATGAGATACTTGAAAGTGAATTCTTTGATACAAGGCAAGCATTCCTGAGTCTATGTCAAG
                                         gtttgat  putative branch site (score: 5)
       tttctctattttatt  TA-rich tract