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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCGCCATCGGCGACGGCCTCGCCGTCATCACCACCGACAACTTCATGGGCAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGACCgtaagatgcctcttctctaaccttctatttatgtttcgaaagcttctggtggcttctatttggattgggagttggagggattggtcatgggagtttcatt...

Basic information

species Oryza sativa
transcript LOC_Os05g16660.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g16660.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G028834_T03 (Zea mays), 5'ss of exon 1
TTCGCCATCGGCGACGGCCTCGCCGTCATCACCACCGACAACTTCATGGGCAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGACCgtaag----atgcctcttctctaaccttctatttatgtttcgaaagcttctggtggcttctatttggattgggagttggagggattggtcatgggagttt-catt
||||||||||| ||||  ||||||||| ||||||||||||||||||||| | |||| |||||||  |||||||||||||||||||| |||  ||| |||||| ||     |||||  ||   ||| ||   ||||||  |   |  ||  || |   ||| | |   |             |    | || || | || | ||  
TTCGCCATCGGGGACGCGCTCGCCGTCGTCACCACCGACAACTTCATGGACCACGTTCCCACCGTTCAGGTCAAGCGCATCGCCGAGGACATCGACGACCgttagtgctgtgccttctcagcaacttttcgtttatgcct---actctgttgttttgttccaatgacacccttgaccttgagatccgatcctgtgtgtatgcag-

upper sequence: LOC_Os05g16660.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G143330_T01 (Zea mays), 5'ss of exon 1
TTCGCCATCGGCGACGGCCTCGCCGTCATCACCACCGACAACTTCATGGGCAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGACCgtaagatgcctcttctctaaccttc-tatttatgtttcgaaagcttctggtggcttctatttggattgggagttggagggattggtcatgggagtttcatt--------
||||||||||| ||||  ||||||||| ||||||||||||||||||||| | |||| ||||||| ||||||||||||||||||||| |||  ||| |||||| || ||| | |||  |  |        ||  |||       | || | ||  ||   |||| || |  ||   |     |||  | || ||   |   |        
TTCGCCATCGGGGACGCGCTCGCCGTCGTCACCACCGACAACTTCATGGACCACGTCCCCACCGTCCAGGTCAAGCGCATCGCCGAGGACATCGACGACCgtcag-tgctttttccttctcaacaacgctttcgttcatgcctcctccgctg--tttcgtttgaatggcaagccagcatccttgaccttgagatcctgtgtacatgcag
















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|25797590|gb|CA753551.1|CA753551
EST:     CAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGAAG                         AGTCGGAGGAGTCTCTTCTCGTGATTTCTGGCATCAAGGGGAGGATTAACA
genomic: CAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGACCgtaagatgcc ... gtggatgaagAGTCGGAGGAGTCTCTTCTCGTGATTTCTGGCATCAAGGGGAGGATTAACA
EST: gi|88267414|gb|CI379349.1|CI379349
EST:     CAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGACC                         ACGTCGGAGGAGTCTCTTCTCGTGATTTCTGGCATCAAGGGGAGGATTAAC
genomic: CAACGTGCCCACCGCCCAGGTCAAGCGCATCGCCGACGACCCCGATGACCgtaagatgcc ... gtggatgaagA-GTCGGAGGAGTCTCTTCTCGTGATTTCTGGCATCAAGGGGAGGATTAAC
EST: gi|55411136|gb|CV723512.1|CV723512
EST:     ACCCCTATGACC                         G
genomic: ACCCCGATGACCgtaagatgcc ... gtggatgaag-
EST: gi|55411136|gb|CV723512.1|CV723512
EST:     ACCCCTATGACC                         G
genomic: ACCCCGATGACCgtaagatgcc ... gtggatgaag-