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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttttcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA

Basic information

species Arabidopsis thaliana
transcript AT1G64550.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os02g58020.2 (Oryza sativa), 3'ss of exon 6
gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttttcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA
             ||||| ||      || |  |   |  || |     |  |  |   |       | |  ||| | |||| |||||||||||||||||||| ||||||||||||||||||||   ||| |||||||| ||||| || || || || ||||||||||| ||  | || |
-------------gtaagtttaaaaacatgaatttgtttcatctctttctggcctatgctaacaagatattattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAATGGCCAAAGACATTCATTGTTGTATCACATGCTAGGGAGTTTCTTAATA

upper sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G013890_T01 (Zea mays), 3'ss of exon 6
gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttttcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA
||  |||     |||  ||||    || ||   |     |  || ||  |  || |   | | |  || ||       |||||||||||||||| |||||||| |||||| ||||||| |||||   |||||||||||| ||||| || || || || || || ||||| || ||||| |
gtaagttggaaatgtggggttatttttcttcact-----tgcttgcacatg-ctaaagctgtatcactttcc------agAACCATCTTGATCTTCATGCTGTGTTATGGCTAGAAACTTATCTCCTGAAGTGGCCAAAGACATTCATTGTTGTATCACACGCAAGGGAGTTTTTGAATA

upper sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G16170.1 (Glycine max), 3'ss of exon 5
gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttt--tcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA
||   |  || ||  ||| ||||  | ||  |||  ||  ||     ||||| |   |||  |   |  | | || | | |||| ||||||||||| ||||||||||||||| | ||| | ||  |    || ||||||||||||||||| || ||||| |||||||| ||||| || ||||
gttactcatcattccaag-tttctttcat--gattcatggatgccttggtttatagaatttatgaattttgttttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAATGGCCAAAAACATTTATTGTTGTTTCTCATGCTAGAGAATTTTTAAACA

upper sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G10530.1 (Glycine max), 3'ss of exon 5
gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttt--tcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA
||   |  || ||   ||   || |||    |||  ||  ||     ||||| |   |||  |   |  | | || | | |||| ||||||||||| ||||||||||||||| | ||| | ||  |    || ||||||||||||||||| || ||||| |||||||| ||||| || ||||
gttactcatcattcccag---tctctttcgtgattcatggatgccttggtttatagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA

upper sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv02s0025g02160.t01 (Vitis vinifera), 3'ss of exon 6
gtgtgttttctttgtaaggtttcccttattagatcaatatatttt----caggttt--------ctgacattcttt--tcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA
||   |  |  |||  ||   | | | |    ||   ||||||      |||  ||        ||  |||| |||  |  | | |||| | ||||||||||||| || |||||||| |||||| | || || || ||   ||| |||||||||||| ||||||| ||||| |||||||| |||||||||||||
gtacatcatgattgatagaacttcttcagagtatatgtatattacttggcagaattgggtaaaacttgcattttttatttttatttttttgcagAACCATCTTGACCTTCATGCTGTTTTATGGCTGGAGACTTACCTGGTGAAATGGCCAAAAACAGTTATAGTTGTTTCTCATGCTAGAGAATTCTTGAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattagatcaatatattttcaggtttctgacattcttttcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA
                         ttctgac  putative branch site (score: 2)
                        tttctgacattctttt  CT-rich tract
     agatcaatatatttt  TA-rich tract