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mki mki
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9 years ago
The GTP binding domain of elongation factor Tu (EF-Tu) and elongation factor 1α (EF-1 α) contains an eight amino acids conserved region, with the sequence FIKNMITG (using the one letter code).  Here you are designing only one of the two primers required for PCR.


a.   If you were using this region to design a primer to amplify by PCR the sense strand of EF-Tu/EF-1 α (forward primer), what sequence of six amino acids would give a 17-mer with the least degeneracy? 
b.   How many different 17-mers would you have to make to be sure that your primer matches all possible corresponding sequences perfectly?
c.   If you started your primer one amino acid to the right of the one you chose in (a), how many different 17-mers would you have to make?  Use the genetic code to determine degeneracy.
d.   To facilitate the cloning process you want to add an EcoRI site to your primer.  Write the sequence of your PCR primer. 
e.   Do the same for the antisense strand (reverse primer) using the amino acid region QTREH
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