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In EDVOTEK experiments, the most common agarose gel concentration for separating dyes or DNA fragments is 0.8%. However, some experi- ments require agarose gels TECHNIQUES IN MOLECULAR BIOLOGY – AGAROSE GELS (HORIZONTAL GEL ELECTROPHORESIS). DNA gels are used to separate fragments of DNA and RNA. prepare an agarose gel for separating DNA molecules. • separate DNA molecules by electrophoresis. • visualize DNA molecules on agarose gels using intercalating horizontal gel electrophoresis. This handout will cover the details of agarose gels, the theory of separation by agarose gel electrophoresis and tips for 6x gel buffer,. 5. DNA sample,. 6. DNA size standard. PRINCIPLE: Agarose gel electrophoresis used to analyze and quantitate nucleic acid. The.Agarose Gel Electrophoresis – uses: • Escmate the size of DNA molecules. • Analyse PCR products, e.g. in molecular diagnosis or genotyping.