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Old 10-27-2011, 12:04 PM   #6
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Location: Purdue University, West Lafayette, Indiana

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In principle, the amounts of primers and other small stuff in a PCR reaction might overwhelm the capacity of some gels. Some tiny amount of small material might end up co-migrating with the DNA you intend to cut out.

More likely, the PCR reactants will slightly alter the mobility of your DNA, making it not run at the same rate as your ladder. So your size estimate may be off. I guess you could add 10x PCR reaction mix (withOUT polymerase!) to your ladder to give it the same buffer and ionic strength as your PCR reaction...


Last edited by pmiguel; 10-28-2011 at 03:41 AM. Reason: You probably do not want to add polymerase to your ladder!
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