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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAACCTCGTCCCCCTCCGAGCCTTCTACTACGCCAAGCAGGAGAAGCTCCTCATCTACGACTACCTCCCCAATGGCAACCTCCATGACCGCCTCCACGgtacacatccatgtctgatgtctcctcctcctagctgtgaatcgccatgagagtggcacgatgagctcgatctcgccattgattgtgtttgtcag

Basic information

species Oryza sativa
transcript LOC_Os12g05120.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g05120.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G046201_T01 (Zea mays), 5'ss of exon 1
CCAAACCTCGTCCCCCTCCGAGCCTTCTACTACGCCAAGCAGGAGAAGCTCCTCATCTACGACTACCTCCCCAATGGCAACCTCCATGACCGCCTCCACGgtacacatcc--------atgtctgatgtctcctcctcctagctgtgaatcgcca--tgagagtggcacgatgagctcgatctcgccattgattgtgtttgtcag----------
||  |||||||||| ||| | |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||| || |||||||||||||| |  ||        | |   | |     || | |     ||  ||| ||||  ||  |||    |      | |  |||  |    | |||| |   |||           
CCGCACCTCGTCCCGCTCAGGGCCTTCTACTACGCCAGGCAGGAGAAGCTCCTCATCTACGACTACCTCCCCAATGGCAACCTCCACGATCGCCTCCACGgtacgcgacctccgccgcaagctggttaatcacttccctcgcttgctaattgccacttgccagtcagtcacacgacactgtctgtcgtccgcttgtctcactcactcactcacag

upper sequence: LOC_Os12g05120.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ13421 (Selaginella moellendorffii), 5'ss of exon 3
CCAAACCTCGTCCCCCTCCGAGCCTTCTACTACGCCAAGCAGGAGAAGCTCCTCATCTACGACTACCTCCCCAATGGCAACCTCCATGACCGCCTCCACGgtacacatccatgtctgatgtctcctcctcctagctgtgaatcgccatgagagtggcacgatgagctcgatctcgccattgattgtgtttgtcag
||  | || ||||  |||| ||| | ||||||||||||| | |||||||||||| ||||||||||| | |||||||||| |||||||  |   ||||| |||     | |   ||     |||| ||   | |  | | |       |||  ||  |    ||                                
CCGCATCTGGTCCAGCTCCAAGCGTACTACTACGCCAAGGATGAGAAGCTCCTCGTCTACGACTACATGCCCAATGGCAGCCTCCATAGCTTGCTCCATGgttggttttccattc---catctcttcgatcgacgtctaagcttgtgtgat-gtctctttctgtag-----------------------------

upper sequence: LOC_Os12g05120.1 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ11865 (Selaginella moellendorffii), 5'ss of exon 2
CCAAACCTCGTCCCCCTCCGAGCCTTCTACTACGCCAAGCAGGAGAAGCTCCTCATCTACGACTACCTCCCCAATGGCAACCTCCATGACCGCCTCCACGgtacacatccatgtctgatgtctcctcctcctagctgtgaatcgccatgagagtggcacgatgagctcgatctcgccattgattgtgtttgtcag
||  | || ||||  ||||  || | ||||||||||||| | |||||||||||| ||||||||||| | |||||||||| |||||||  |   ||||| |||     | |   ||     |||| ||   | |  | | |       |||  ||  |    ||                                
CCGCATCTGGTCCAGCTCCAGGCGTACTACTACGCCAAGGATGAGAAGCTCCTCGTCTACGACTACATGCCCAATGGCAGCCTCCATAGCTTGCTCCATGgttggttttccattc---catctcttcgatcgacgtctaagctcgtgtgat-gtctctttctgtag-----------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|66923858|gb|CX110706.1|CX110706
EST:     CCTCATCTACGACTACCTCCCCAATGGCAACCTCCATGACCGCCTCCACG                         GGCACCGGATGTCGGGGGAGTCGCCGTTGGACTGGACGACGAGGGTGAGGC
genomic: CCTCATCTACGACTACCTCCCCAATGGCAACCTCCATGACCGCCTCCACGgtacacatcc ... tgtttgtcagGGCACCGGATGTCGGGGGAGTCGCCGTTGGACTGGACGACGAGGGTGAGGC
EST: gi|58667013|gb|CK055699.1|CK055699
EST:     ATGACCGCCTCCACG                         GGCACCGGATGTCGGGGGAGTCGCCGTTGGACTGGACGACGAGGGTGAGGC
genomic: ATGACCGCCTCCACGgtacacatcc ... tgtttgtcagGGCACCGGATGTCGGGGGAGTCGCCGTTGGACTGGACGACGAGGGTGAGGC