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 by Chris Upton


j-CODEHOP is a tool integrated into Base-By-Base, and can be launched from the “Advanced” menu. The purpose of this tool is to design COnsensus DEgenerate Hybrid Oligonucleotide Primers (CODEHOPs) from amino acid sequence alignments.

j-CODEHOP can design PCR primers capable of amplifying distantly related genes. It has been used to identify and characterize new gene orthologs and paralogs in different plant, animal and bacterial species, as well as identify new pathogenic species. List of research papers that cite CODEHOP.

Note: a CODEHOP is a pool of related primers. Two CODEHOPs are required, acting as the 5prime and 3prime (forward and reverse) PCR primers.


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Associated keywords

DNA Primers Sequence Homology

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