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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATGCATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagttgatttactatatatttatattattcaaaaagtgttaatgcttttatgtattattctag

Basic information

species Oryza sativa
transcript LOC_Os01g56630.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56630.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G078576_T01 (Zea mays), 5'ss of exon 9
CAATGCATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagttgatttactatatatttatattattca-aaaagtgttaatgcttttatgtattattctag
 ||||||||||| ||||| || |||||||| |||||||| |||||  |||| || || |||||||||||||||||||||||||||||||| |||||||||||||| ||  |  || |||   || ||   |||||   |||| |||||||  | | ||||  |  || ||
TAATGCATCAAGGAAGACTTCAAATCAGATTTACATGCTGTTGATTATTCTCCTGATCCTCAGTCAAGATTCAACCTTCAATGCTAGTGTGCACAAATTGgtaaggaaactagttgacttcttaatttgtttatttgtaaaactgttaataatataatgtgctgctccag

upper sequence: LOC_Os01g56630.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G079389_T01 (Zea mays), 5'ss of exon 9
CAATGCATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagttgatttactatatatttatattattca-aaaagtgttaatgcttttatgtattattctag
|||||||||||| ||||| || |||||||| |||||||| |||||  |||| ||||| |||||||||||||||||||||||||||||||| ||| ||||||||||| |  |  || | |   || ||   |||||   |||| |||||||  | | | ||   | || ||
CAATGCATCAAGGAAGACTTCAAATCAGATTTACATGCTGTTGATTATTCTCCTTATCCTCAGTCAAGATTCAACCTTCAATGCTAGTGTGCACCAATTGgtaagccaactagttaatttcttaatttgtttatttgtaaaactgttaataatataacgtgcaactccag
















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|58684083|gb|CK072770.1|CK072770
EST:     TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTG                         GTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
genomic: TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagt ... attattctagGTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
EST: gi|29628456|gb|CB633467.1|CB633467
EST:     TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTG                         GTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
genomic: TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagt ... attattctagGTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
EST: gi|58693104|gb|CK081791.1|CK081791
EST:     TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTG                         GTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
genomic: TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagt ... attattctagGTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
EST: gi|29639051|gb|CB644060.1|CB644060
EST:     TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTG                         GTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT
genomic: TTCTTATACTCAGTCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGgtaagcaagt ... attattctagGTGCTTCCGAGCGTCCCTTGGTACCATGAGCGCCTTATGCATCAAACTTCT