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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