Abstract
The purpose of CODEHOP is to help in the design of degenerate PCR primers from protein sequence.
Highlights
The purpose of CODEHOP is to help in the design of degenerate PCR primers from protein sequence
The easiest way to use the CODEHOP site is to start with the BLOCKMAKER program, which takes two or more related protein sequences and identifies conserved blocks of sequence within them
Each of the sequences can be assigned a different weight, which may be useful for biasing primer design towards, or away from, a particular sequence
Summary
The purpose of CODEHOP is to help in the design of degenerate PCR primers from protein sequence. The easiest way to use the CODEHOP site is to start with the BLOCKMAKER program, which takes two or more related protein sequences and identifies conserved blocks of sequence within them. Once these blocks have been determined, the output can be fed directly to the CODEHOP program by following a link on the output page. You can designate which codon-usage table to use, selected from a list of over 75 precalculated codon-usage tables, including a generic average eukaryotic table or an equal weighted table (additional codon tables can be requested by e-mailing the webmaster).
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