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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACATCCAGAAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAGgtaagcaggctatcaataattactatttgctctgcgcttgcatttggctaatgctgcccttgggatccttcag

Basic information

species Oryza sativa
transcript LOC_Os01g40340.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40340.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G806347_T01 (Zea mays), 5'ss of exon 7
GGACATCCAGAAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAGgtaagcaggctatcaataatt----actatttgctctgcgcttgcatttggctaatgctgcccttgggatccttcag
|| |||||| | ||||||||||| || ||||||||||||||||||||||| ||||||||||||||      || ||| |||    | || |   |    |  ||||||||| | ||| || ||  |  || ||| ||
GGGCATCCAAAGATAGTTGTCCAGCTTGTTGACCTGATTGGCATCACATCGATAATGGAGgtaagtttatcatgaattattttaaattaatgaattgttgggtgcatttggttgatgttgtccccga-attctttag

upper sequence: LOC_Os01g40340.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G470292_T01 (Zea mays), 5'ss of exon 7
GGACATCCAGAAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAGgtaag-------caggctatcaataattactatttgctctgcgcttg----catttggctaatgctgcccttgggatccttcag
|| |||||||| ||||||||||| || ||||||||||||||||||||||| ||||||||||||||       |     |||  | |||  || ||  |      |||    ||||||| | |||||| || ||| || ||| ||
GGGCATCCAGAGATAGTTGTCCAGCTTGTTGACCTGATTGGCATCACATCGATAATGGAGgtaagtttatcacgattcatcggttatttttaattaatgaattattgggtgcatttggttgatgctgtccctgg-attctttag
















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|88695505|gb|CI737543.1|CI737543
EST:     AAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAG                         GTGTTAATACGATTGATTGGTGCTGATGAGACCATATACTCAAACTATGGC
genomic: AAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAGgtaagcaggc ... gatccttcagGTGTTAATACGATTGATTGGTGCTGATGAGACCATATACTCAAACTATGGC
EST: gi|58605044|gb|CK033077.1|CK033077
EST:     AAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAG                         GTGTTAATACGATTGATTGGTGCGGATGAGACCATATACTCAAACTATGGC
genomic: AAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAGgtaagcaggc ... gatccttcagGTGTTAATACGATTGATTGGTGCTGATGAGACCATATACTCAAACTATGGC
EST: gi|29669991|gb|CB666266.1|CB666266
EST:     AAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAG                         GTGTTAATACGATTGATTGGTGCTGATGAGACCATATACTCAAACTATGGC
genomic: AAATAGTTGTCCAACTCGTTGACCTGATTGGCATCACATCAATAATGGAGgtaagcaggc ... gatccttcagGTGTTAATACGATTGATTGGTGCTGATGAGACCATATACTCAAACTATGGC