Can we distinguish 4733 bp plasmid from 6248 bp plasmid in the 1 percent agarose gel?
Can anybody help me with their suggestions?
yes they will separate although you will have to be aware that the nicked,closed circular and linear plasmids of each type will run at different sizes. if you are trying to separate plasmids with insert from no insert then a pcr into or across the insert might be quicker
yes you can separate them, to have a better separation, you can reduce the voltage intensity and let the migration take place slowly.
I would suggest a lower percent agarose such as 0.7% will also help with improved separation. But 4.7 kb should be easily separated from 6.2 kb. But as Paul Rutland points out, if you run uncut plasmid you will have different forms so you should be able to see the difference with uncut, it will be cleaner if you linearize the plasmids first.
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