How to sepate two similar sized DNA fragments - (Oct/09/2006 )
I want to separate two DNA fragments; one is 600bp the other is 617 bp can this be achieved with a high percentage agarose gel, i.e 3%
You can probably see the difference if you run two lanes next to one another, but I doubt if you could, for example, isolate one band from a pair by cutting.
I agree, I think you would have trouble isolating one band from the other in large quantities. Is it from a plasmid? Maybe you could amplify the fragment by PCR.
If you want to physically separate them, instead of visually separating them, try cloning.
As for the latter, I'm not sure if 3% agarose will be able to separate them but phage434's idea is good, unless you don't have the nt sequence info to refer.