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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaattatgatgaagacactgtattgcttgctttgcatgccttacttatcataggtgtctctgataaattaaaatggtcgtttttttgcattttcttgcagAGTTACACACAGTATATTCCACTTCCAATTACTGATCTTGATTCATGGCTGAAGACACCTTCAATTTACGTTTTTGATTGCTCAGCGTCTGGAATTATTG

Basic information

species Zea mays
transcript GRMZM2G048067_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 3
gtaaaattatgatgaagacactgtattgcttgctttgcatgccttacttatcataggtgtctctgataaattaaaatggtcgtttttttgcattttcttgcagAGTTACACACAGTATATTCCACTTCCAATTACTGATCTTGATTCATGGCTGAAGACACCTTCAATTTACGTTTTTGATTGCTCAGCGTCTGGAATTATTG
|| || | | ||||||||| || |||| |||| ||| ||| |||| | ||| || | | | ||||||| | |||| |||||||||||||||| |||||||| ||||| |||||||||||||||||||||||||| |||||||| || || |||||||| |||||||| ||||||| ||||
gtgaa--tgttgcaaagacactgcataagctgct--gcattgtttatc---catgtgtgtttttgacgaagt------gccctttttttac-tttttgtgcagAGTTACACACAATATATTCCGCTTCCCATTACTGATCTTGATTCATGGCTGAAAACACCTTCTATATATGTTTTTGACTGCTCAGCAGCTGGAATGATTG

upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 4
gtaaaattatgatgaagacactgtattgcttgctttgcatgccttacttatcataggtgtctctgataaattaaaatggtcgtttttttgcattttcttgcagAGTTACACACAGTATATTCCACTTCCAATTACTGATCTTGATTCATGGCTGAAGACACCTTCAATTTACGTTTTTGATTGCTCAGCGTCTGGAATTATTG
|| || | | ||| ||||| || |||| |||| ||| ||| |||| | ||| || | | ||||||| | |||| ||||||||||||||||||||||||| ||||| |||||||||||||||||||||||||| ||||| || || || |||||||| |||||||| ||||||| || |
gtgaa--tgttgcaaaggcactgcataagctgct--gcattgtttatc---catgtgtgtttttgacgaagtg---cccttttttttttactttttggtgcagAGTTACACACAGTATATTCCGCTTCCTATTACTGATCTTGATTCATGGCTGAAAACACCCTCTATATATGTTTTTGACTGCTCAGCAGCTGGAATGATCG

upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G41510.1 (Glycine max), 3'ss of exon 4
gtaaaattatgatgaagacactgta-ttgcttgctttgcatgccttacttatcataggtgtctctgataaattaaaatggtcgttttt--ttgcattttcttgcagAGTTACACACAGTATATTCCACTTCCAATTACTGATCTTGATTCATGGCTGAAGACACCTTCAATTTACGTTTTTGATTGCTCAGCGTCTGGAATTATTG
| || || | | || || | | ||| || ||| | || | | | | || | ||| || || || | | ||| || || |||||||| |||||||||||||| | || || | ||| |||||||| ||||||||||| || |||||||| |||||||||||||| ||| |||| || ||||
--gatatgggttccaattgagtataattccctcatttaca-atatta-tgatgaaaagag-cttcatgacattcttattctcattctgcatcacatcttgtt-cagAGTTATACACAGTATATTCCCTTACCTATCAATGAACTTGATTCCTGGCTGAAGACCCCATCAATTTATGTTTTTGATTGCTCTGCGGCTGGGATGATTG

upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 4
gtaaaattatgatgaagacactgtattgcttgctttgcatgccttacttatcataggtgtctctgataaattaaaatggtcgtttttttgcattttct-tgcagAGTTACACACAGTATATTCCACTTCCAATTACTGATCTTGATTCATGGCTGAAGACACCTTCAATTTACGTTTTTGATTGCTCAGCGTCTGGAATTATTG
| || || | | || ||| | || | | | || | | | || | ||| || || || || ||| | | | |||||||| |||||||||||||| | || || | ||| |||||||| ||||||||||| || ||||||||||| |||||||||| ||| |||| || ||||
--gatatgggttccaattgagtataatgccctcatt-tacaatatcatgatga-aaatagcttcatgacattcttattctcattcttcatcatatcatgttcagAGTTATACACAGTATATTCCCTTACCTATCAGTGAACTTGATTCCTGGCTGAAGACCCCATCAATTTACGTCATTGATTGCTCTGCGGCTGGGATGATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcataggtgtctctgataaattaaaatggtcgtttttttgcattttcttgcagAGTTACACACAGTATATTCCACTTCCAATTACTGATCTTGATTCATGGCTGAAGACACCTTCAATTTACGTTTTTGATTGCTCAGCGTCTGGAATTATTG
            ctctgat  putative branch site (score: 4)
 tttttttgcattttct  putative PPT
 tctgataaattaaaat  TA-rich tract