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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCTGGCCTTCCGCGCGGCGAACGCGCTGCTGGTGCGCACCTACTTCAACCCCGACGAGCACTGGCAGTGCCTCGAGGTCGCCCACCGCATCGTCTTCGGgtaaaactcgccgccctcttcgccggtgtttagcttcgaatccagcgggcactccagtccaagggagtgggatgcttaagctgctgcattttgtgagccttctctgttcgttcgttgcag

Basic information

species Oryza sativa
transcript LOC_Os01g39810.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39810.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G164175_T02 (Zea mays), 5'ss of exon 3
CGCTGGCCTTCCGCGCGGCGAACGCGCTGCTGGTGCGCACCTACTTCAACCCCGACGAGCACTGGCAGTGCCTCGAGGTCGCCCACCGCATCGTCTTCGGgtaaaactcgccgccctcttcgccggtgtt--tagcttcgaatccagcgggcac--tccagtccaag--ggagtgggatgcttaagctgctgcattttgtgagccttctctgttcgttcgttgcag
||||||| ||||||||||| |||||| |||| |||||||| |||||||||||||||||||||||||||||||||||||||||||||||| |||  |||||||||  |||||| | | | | || | || |    ||||||         |  ||  | |   |  |   |||   || |||| |  |  |||| |     |||                       
CGCTGGCGTTCCGCGCGGCCAACGCGTTGCTCGTGCGCACATACTTCAACCCCGACGAGCACTGGCAGTGCCTCGAGGTCGCCCACCGCGTCGCGTTCGGgtaac-ctcgcc-ctcgccttgctgttgctgcctgcttcgctggtgttagttacggtgcgccctgaattggatccggttgctca--ccactgcttggctcgagg----------------------

upper sequence: LOC_Os01g39810.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G000937_T01 (Zea mays), 5'ss of exon 2
CGCTGGCCTTCCGCGCGGCGAACGCGCTGCTGGTGCGCACCTACTTCAACCCCGACGAGCACTGGCAGTGCCTCGAGGTCGCCCACCGCATCGTCTTCGGgtaaaactcgccgccctcttcgccggtgtt--tagcttcgaatccagcgggcactccagtccaagg-gagtgggatgcttaagctgctgcattttgtgagccttctctgttcgttcgttgcag
||||||| ||||||||||| ||||||||||| |||||||| ||||||||||| || |||||||||||||| |||||||||||||||||| ||| ||||||||||  |||||| | | | | || | || |    ||||||   |  | |     | | || |     || | |||| |    | ||||||   |    || |  | ||| |            
CGCTGGCGTTCCGCGCGGCCAACGCGCTGCTCGTGCGCACGTACTTCAACCCTGATGAGCACTGGCAGTGTCTCGAGGTCGCCCACCGCGTCGCCTTCGGgtaac-ctcgcc-ctcgccttgctgttgctgcctgcttcg---ctggtgttagttgcggtgcgccccgaattggatcc---ggttgctgc---tcactagtcaccactgct------------

upper sequence: LOC_Os01g39810.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA17G07620.1 (Glycine max), 5'ss of exon 1
CGCTGGCCTTCCGCGCGGCGAACGCGCTGCTGGTGCGCACCTACTTCAACCCCGACGAGCACTGGCAGTGCCTCGAGGTCGCCCACCGCATCGTCTTCGGgtaaaactcgccgc---cctcttcgccggtgtttagcttcgaatccagcgggcactccagtccaagggagtgggatgcttaagctgctgcattttgtgagccttctctgttcgttcgttgcag
         || ||  ||| |   |  |  ||||||  || || |||||||||||||| ||||||||| ||| ||||||||| || ||||||| ||| |||||    ||    |    | | |  |  || || |  ||||  ||   || | |  ||  ||  | |   ||   ||                                              
------TTCTCTGCTTGGC-ATTACATT-TTGGTGCAGACTTATTTCAACCCCGACGAACACTGGCAGGGCCCCGAGGTCGCTCATCGCATCGCCTTTGGgtaccgttccattcatttcccctttcatgttttcatgttcgtttctt-cgtgaatgcc--tcataagctctgatctggcag------------------------------------------

upper sequence: LOC_Os01g39810.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ22080 (Selaginella moellendorffii), 5'ss of exon 1
CGCTGGCCTTCCGCGCGGCGAACGCGCTGCTGGTGCGCACCTACTTCAACCCCGACGAGCACTGGCAGTGCCTCGAGGTCGCCCACCGCATCGTCTTCGGgtaaaactcgccgccctcttcgccggtgtttagcttcgaatccagcgggcactccagtccaagggagtgggatgcttaagctgctgcattttgtgagccttctctgttcgttcgttgcag
   | || || ||   |  ||| || ||||| || ||||| ||||||||||| ||||||||||||||    ||||| || || |||||||| ||||||||||||  |||     |   |    ||||   ||  |||   |       |   || ||                                                               
GTATTGCGTTTCGTTTGCTGAATGCCCTGCTCGTTCGCACGTACTTCAACCCGGACGAGCACTGGCAAGCACTCGAAGTTGCGCACCGCATTGTCTTCGGgtaag-ctcaaaaacaaatctctcggt-catacattcttgttttctttgtgatctag---------------------------------------------------------------