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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtccgtccgttcatccctctgtctgctttgctcgatgggggtggtcgggttcctagggttcatgggggctcctgtgctgacgttgtggtgcttgcagGTGGCGAGGGGCGGCGCGTCGCCGCCGTGGAGGGACGACGACCGCGACGGGCACTACGTGTTCGACCTCGGCGAGAACTTGAACCGACGAT

Basic information

species Oryza sativa
transcript LOC_Os01g40840.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40840.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G094039_T06 (Zea mays), 3'ss of exon 1
gtacgtccgtccgttcatccctctgtctgctttgctcgatgggggtggtcgggttcctagggttcatgggggctcctgtgctgacgt-----tgtggtgcttgcagGTGGCGAGGGGCGGCGCGTCGCCGCCGTGGAGGGACGACGACCGCGACGGGCACTACGTGTTCGACCTCGGCGAGAACTTGAACCGACGAT
                        | | |||||||||| || |      | | ||    |||||   ||  |  |   ||| ||  |      |  ||||  |||||| |||||||| ||||||||||| || |||||||| || ||||| || || |||| ||| |||||||| ||||||||||||| ||| ||||
-------------------gtagggcccgctttgctcg-tgagtactcgcagatttgcggggtttcaggctgtgctgatgcagatttggccacgctgtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCACCATGGAGGGAGGATGACCGTGATGGACACTTCGTATTCGACCTTGGCGAGAACTTGACCCGCCGAT

upper sequence: LOC_Os01g40840.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G366935_T09 (Zea mays), 3'ss of exon 1
gtacgtccgtccgttcatccctctgtctgctttgctcgatgggggtggtcgggttcctagggttcatgggggctcctgtgctgacgttgtg-----gtgcttgcagGTGGCGAGGGGCGGCGCGTCGCCGCCGTGGAGGGACGACGACCGCGACGGGCACTACGTGTTCGACCTCGGCGAGAACTTGAACCGACGAT
                        | | |||||| ||| || |      |   ||  |  ||||   ||  |  |   |||  |  |||       ||||  |||||| |||||||| ||||||||||| || |||||||| || ||||||||||| |||||||| ||||| |||||||||||||||| ||| ||||
-------------------gtagggcccgctttggtcg-tgagtactcacaaatttgtgtggtttggggttgtgctgatgcatattttgccactctgtgcacgcagGTAGCGAGGGGTGGCGCGTCGCCTCCATGGAGGGAGGATGACCGCGACGGACACTACGTCTTCGATCTCGGCGAGAACTTGACCCGCCGAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcgggttcctagggttcatgggggctcctgtgctgacgttgtggtgcttgcagGTGGCGAGGGGCGGCGCGTCGCCGCCGTGGAGGGACGACGACCGCGACGGGCACTACGTGTTCGACCTCGGCGAGAACTTGAACCGACGAT
                                tgctgac  putative branch site (score: 2)