Patent ID: 8795987

Claim:
A method for synthetically constructing a nucleic acid molecule from sequences related to Oryza sativa , the method comprising: predicting a microRNA precursor sequence related to Oryza sativa , wherein predicting a precursor sequence comprises: generating one or more patterns of conserved sequences by processing a collection of known microRNA precursor sequences related to Orvza sativa and applying a pattern discovery method to the collection of known microRNA precursor sequences to generate the one or more patterns; assigning one or more attributes to the one or more generated patterns; subselecting one or more candidate regions of a sample nucleotide sequence from at least one of an intergenic region and an intronic region in connection with using the one or more patterns whose one or more attributes satisfy at least one criterion; and using the one or more subselected candidate regions to predict one or more microRNA precursors in a nucleotide sequence related to Oryza sativa via filtering the one or more subselected candidate regions based on, for each pattern of sequences, structure energy and number of bulges; predicting a mature microRNA sequence related to Oryza sativa , wherein predicting a precursor sequence comprises: generating one or more patterns of conserved sequences by processing a collection of known mature microRNA sequences related to Oryza sativa and applying a pattern discovery method to the collection of known mature microRNA sequences to generate the one or more patterns; assigning one or more attributes to the one or more generated patterns; subselecting one or more candidate regions of a sample nucleotide sequence from at least one of an intergenic region and an intronic region in connection using the one or more patterns whose one or more attributes satisfy at least one criterion; using the one or more subselected candidate regions to predict one or more mature microRNA in a nucleotide sequence related to Oryza sativa via filtering the one or more subselected candidate regions based on, for each pattern of sequences, structure energy and number of bulges; and synthetically constructing a nucleic acid molecule based on a predicted microRNA precursor sequence and a predicted mature microRNA sequence.