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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttggaattggtgctttctgattttgctgaagatctgcatgccatgcgttctgcatttcaagtgttgcttaccactgttagtatgttgaacctgtcacagGAAAGATTACTACCAAGAGGGTAACCGTGTATACAGTGAGCTGAATGTTGATGATGCCTTCCAGAAAGCTCTTATTACCTGGGCCAAGTGGGTTGATTCC

Basic information

species Oryza sativa
transcript LOC_Os02g53380.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM5G843892_T01 (Zea mays), 3'ss of exon 3
gtaagttggaattggtgctttctgattttgctgaagatctgcatg--ccatgcgttctgcatttcaagt-gttgcttaccactgttagtatgtt-----------gaacctgtcacagGAAAGATTACTACCAAGAGGGTAACCGTGTATACAGTGAGCTGAATGTTGATGATGCCTTCCAGAAAGCTCTTATTACCTGGGCCAAGTGGGTTGATTCC
|| || | | | |||||| ||||||||||| || | | ||||||||| | | | ||| | | | ||| || || || | |||||||||||||||||||||||| ||||| || |||||||||||| | || | |||||||| | | |||||| | ||||||||||||||||||||||||
gtgagcaaaacaatgcattgcctgattc-actgaagatctgtgcagttcagacatcctgcatttccatttgccatgtactgttctgattattttttagaaaaaaaaaatgtgccgcagGAAAGATTACTACCAAGAGGGCAACCGCGTGTACAGTGAGCTGGACGTCCACGATGCCTTTCGGCGAGCTCTCAACACCTGGGCCAAGTGGGTTGATTCC

upper sequence: LOC_Os02g53380.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G165961_T01 (Zea mays), 3'ss of exon 3
gtaagttggaattggtgctttctgattttgctgaagatctgcatgccatgcgttctgcatttcaagtgttgcttaccactgttagtatgttgaacctgtcacagGAAAGATTACTACCAAGAGGGTAACCGTGTATACAGTGAGCTGAATGTTGATGATGCCTTCCAGAAAGCTCTTATTACCTGGGCCAAGTGGGTTGATTCC
|| || | | || |||| | ||||||| |||||| ||| | | || | | | ||| | | | | | || |||||||||||||||||||| ||||| ||||| ||||||||||||||| ||||| |||| ||||| | || |||||| | |||||||| |||||||||||||||
gtgagcaaaacaatgccctgcctgactc-actgaagacctgcatttcatttgccttctgattatttttaaattgccttctgattatttttaaattgtgccacagGAAAGATTACTACCAGGAGGGCAACCGCGTATACAGTGAGCTGGATGTTCATGACGCCTTTCGGAGAGCTCTCAACACCTGGGCTAAGTGGGTTGATTCC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgttctgcatttcaagtgttgcttaccactgttagtatgttgaacctgtcacagGAAAGATTACTACCAAGAGGGTAACCGTGTATACAGTGAGCTGAATGTTGATGATGCCTTCCAGAAAGCTCTTATTACCTGGGCCAAGTGGGTTGATTCC
                    tgcttac  putative branch site (score: 2)
 atttcaa  TA-rich tract