I have some restriction enzymes (HpaII, BsmAI, Hind III, BsiI, Hin6I, MspI).
How I can find all PCR reactions using this restrictases?
UPD: Thanks for answers and sorry for not quite clear question. I think Webcutter is good variant for start.
You could look for sequence containing restriction sites of these enzymes to find whole matching sequence. Though I do not see much sense in blindly looking for DNA to cut.
if the genome is 3x109 and Msp1 is a 4 cutter ccgg then on average there will be
3 billion/4 or about 7.5 times 10x10exp8 cut sites just for the one enzyme. Most databases will not let you search for 4 base sequences because of the huge amount of output data generatedI think you may need to clarify your question and focus your work on a much smaller target
If you are looking for restriction sites within you PCR product you can paste the expected sequence of the product it into one of the free online tools, such as WebCutter or restrictionmapper.org , select an enzyme (they offer many) and the application will find restriction sites in you product sequence.
- Badges
- Science topic
- Similar topics
- Biological Science
- Biochemistry
- Enzymology
- Enzymes