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Welcome to GeneQuest
Welcome to GeneQuest
GeneQuest aids you in identifying the following features in your DNA sequence: Open reading frames Coding regions Splicing junctions Translation start and stop sites Transcription factor binding sites Restriction sites Patterns Repeats Note: GeneQuest is…
Work with Methods
Work with Methods
For information on working with the GeneQuest methods, see the following topics: Look for exons Analyze restriction sites Change method parameters Compare results from different methods Compare results for the same method, but using different parameters Apply a…
Run a Simulated Agarose Gel
Run a Simulated Agarose Gel
GeneQuest helps you predict electrophoretic separation of restriction fragments through an agarose gel. The following video demonstrates this. *Note: Agarose gel functionality and useability is greatly improved in SeqBuilder Pro, our modern application that is…
Getting Started
Getting Started
GeneQuest aids you in identifying and annotating coding regions and other features of interest in your DNA sequence. The following video is a general overview of GeneQuest: Get started with GeneQuest: Create a new project or open an existing project. Choose…
Enzymes – Restriction Map
GeneQuest Methods » Enzymes – Restriction Map
This method identifies restriction sites and displays them as a mini-map, showing recognition sites as vertical bars. GeneQuest can also superimpose mini-maps to show restriction patterns from multiple digests. To view information about a particular enzyme, double…
Patterns – Matrix
GeneQuest Methods » Patterns – Matrix
This method, located in the More Methods section, finds sequence features such as start sites, splice acceptor sites and splice donor sites. The matrix patterns are defined in separate data files, which are normally installed in the Matrix Patterns folder, found in the…
Look for Exons
Look for Exons
If you are working with a eukaryote, you may wish to see if two or more neighboring exons are part of the same gene. If this is the case, you should be able to locate a donor splice at the 3’ end of one exon and an acceptor splice at the 5’ end of the next. You can…
Patterns – Signal
GeneQuest Methods » Patterns – Signal
This method, located in the More Methods section, finds transcription factor binding sites using species-specific sequence patterns. To enable you to search your sequence for known transcription factor binding sites, the TFD.dat file is provided. The data in this file…
Analyze Restriction Sites
Analyze Restriction Sites
To create restriction maps in GeneQuest, apply the Enzymes – Restriction Map method to the Assay Document. Use the Microscope tool to view restriction sites on an expanded portion of the sequence. The following video shows the method in use: Once you have…
Coding Prediction – Borodovsky
GeneQuest Methods » Coding Prediction – Borodovsky
Coding Prediction – Borodovsky plots are used to evaluate coding potential independent of identifying ORFs. This method, located in the More Methods section, finds potential coding regions by analyzing the sequence against data contained in statistical matrix…