Method and system for sequence presentation
AssigneeHitachi, Ltd.
InventorsTakehiko Hosoiri, Takahide Yokoi, Masako Wagatsuma
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Abstract
Based on a partial sequence of a target gene having an unidentified sequence, a partial sequence corresponding thereto is extracted from a genome sequence by homology search on a database. Exon regions are predicted using plural programs, respectively, and common sequences among the predicted exon regions are extracted. A set of primers is designed based on a combination of a 5′ end sequence and a 3′ end sequence selected from the plurality of common sequences. Amplification using the selected combination of 5′ end and 3′ end sequences as a set of primers results in an amplified gene that may be cloned. A display system for preparing primer sequences and utilizing the prepared primer sequences.
Claims13
A method for presentation of sequences, comprising the steps of:
- extracting a first partial sequence from a mRNA;
- extracting a second partial sequence from a database by searching, the second partial sequence corresponding to the first partial sequence;
- predicting a first exon region within the second partial sequence using a first program;
- predicting a second exon region within the second partial sequence using a second program;
- and
- extracting a common region between the first exon region and the second exon region as a common sequence.
A display system comprising:
- means for displaying a first partial sequence derived from a mRNA;
- means for displaying a second partial sequence derived from a genome sequence in a database, the second partial sequence corresponding to the first partial sequence;
- a selection button for selecting a plurality of different programs including first and second programs;
- means for displaying exon regions of the second partial sequence, the exon regions being extracted through the use of the selected plurality of different programs;
- means for displaying a first exon region extracted through the use of the first program;
- means for displaying a second exon region extracted through the use of the second program;
- and
- a common sequence extraction button for extracting a sequence common to the first exon region and the second exon region.
A method comprising the steps of:
- extracting a first partial sequence from a mRNA;
- identifying a second partial sequence corresponding to the first partial sequence from among a genome sequence;
- identifying common sequence(s) among exon regions within the second partial sequence, the exon regions being predicted through the use of a plurality of exon prediction programs;
- selecting a combination of a 5′ end sequence and a 3′ end sequence from the common sequence(s);
- and
- designing a set of primers based on the selected combination of the 5′ end and 3′ end sequences.
Dependencies are inferred from the claim text.