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A problem of quantitative PCR - (Aug/21/2005 )

I isolated mRNA from cells and did RT-PCR, there's a major band with some weak bands after running the gel, and i guess the primer design is not perfect to observe only one band. since i cannot get single band even though the intensity of the major one is much higher than the others, i am wondering if i can use this primer to perform quantitative PCR, thx, rolleyes.gif



Short answer: No

For quantitative PCR, you need a single band so that you can ensure that all the change in fluorescence is due to your product, not any non-specific product. Have you tried optimising your PCR using Mg2+ and/or temperature gradients to see if you can get a single band?



Can different Mg2+ concentrations improve band quality by eliminating those non-specific bands?? because before i only tried to use different Mg2+ concentrations to get bands when there is no band after running the gel.