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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatattattttctagtgtttgtgtaatatttgtctacttttatttgatcttctggattttttttttttttacctcttttgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG

Basic information

species Glycine max
transcript GLYMA18G49000.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 13
gtgatattattttctagtgtttgtgtaatatttgtctacttttatttgatcttctggattttttttttttttacctcttttgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG
            | |    |||||| ||||||  | |    ||||     ||  |||   |  ||    |  | |  |||| ||||||||             ||| |||||||||| |||||||| || ||||| ||||| ||| ||||||||||| |   ||| || || |  || ||
-----------gtatcccctttgtggaatattcatttttcattatc----ctgttgg---tgcttaaactaaatcattttttcttgatttc-----------cttgtagACAAAACTGAAAAGTGCCGTGCAACTACAAGACTTGCTAGATGCCACAAGGCAGCTTGTACCACCAACAAG

upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 14
gtgatattattttctagtgtttgtgtaatatttgtctacttttatttgatcttctggattttttttttttttacctcttttgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG
                      |||  |   |    |  || ||| |  ||   |  |  || | ||  || |  |  ||    ||  | |||         ||||||||| |||||||| ||||| || ||  | |||||| | |||||||||||| ||||| ||||||| ||||| ||
----------------------gtgagaggctcaagtctttatatct--tcaagttcagcttgtcttgattaatttgcttatactgtgtcaatttctccccttttgcagACCAAACTTAAGAGTGCCGTCCAGTTGCAAGATCTATTAGATGCCACAAGAATGTTAGTTCCCCGTACAAG

upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 13
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 14
gtgatattattttctagtgtttgtgtaatatttgtctacttttatttgatcttctggattttttttttttttacctcttttgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG
                |||   |  |     || || || || |  |   |  |     |     |||| | |   | | |  ||  |||     |   || ||| |||||||||||||||| ||| || ||| | |||||| | || ||||||||| ||||| || |||||||| | ||
----------------gtgagaggcttgggattttccaccttcaactttgccccgcctatagggattttctgataccgtgtatttttttt-----ttccttttttacagACAAAACTTAAAACTGCCGTCCAATTGCAAGATCTATTGGATGCCACAAGAATGTTAATTCCTCGTGCAAG

upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 13
gtgat-attattttctagtgtttgtgtaatatttgtctacttttatt--tgatcttctggattttttttttttttacctcttt-tgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG
||| | | | |    |  | ||| | | || ||||| |  || ||||    || ||||   || | |  |   |||     |  ||| |   || ||||||| ||  |||||||||||||| || |||||| | ||  | ||||||||||| ||||||||||| ||||| || || || || ||
gtgcttactttcccttcatctttttctcat-tttgttttattgtattgtcaatattcttatttatgtaatcgcttattagatggtgcatttgttgatgatctctt--ttgcagACAAAACTCAAGAGTGCTATCCAGTTGCAAGATTTGTTGGATGCCACACGGATGCTTGTACCACGCACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggattttttttttttttacctcttttgcttgatttaatgatcttttgtttgcagACAAAACTTAAAAGTGCTGTTCAACTTCAAGATTTGTTAGATGCCACACGAATGCTAGTTCCTCGTACCAG
                                atttaat  putative branch site (score: 4)
                                         tcttttgttt  putative PPT
     tttttttttttttacc  TA-rich tract