Primer Premier is a bioinformatics software used for various PCR applications. It supports the design of degenerate primers for amplifying a related set of nucleotide sequences for the detection of common traits amongst organisms, as well as to determine heredity.[1]
The software also designs tagged and nested primers for multiplex PCR reactions.[2]
The Primer Premier software supports motif analysis and ORF search along with finding restriction cut sites on the nucleotide sequence.
The software has a built-in nucleotide-protein and protein-nucleotide sequence translator which can be used for designing degenerate primers for codons that code for multiple amino acid sequences. It is also understood that the primers designed by Primer Premier are effective and confirm to the design guidelines laid for designing primers for housekeeping genes with a high G+C%.[3]
The software also designs primers for flanking exons and introns in a gene, though there is no mention of it on the official Primer Premier page on the Premier Biosoft website.
^Zhaohui S, Wenling Z, Bao Z, Rong S, Wenli M. Microarrays for the detection of HBV and HDV PMID15479617
^Sensitivity, specificity and stability of the Tag-primer nested/multiplex PCR for malaria diagnosis Guo CK, Li XM, Li JH, Mao W, Lin Z, Du JF, Huang TY.PMID18038781
^Guo YP, Huang Y.Design and validation of primers for housekeeping genes of streptomycetes PMID18271268
