Gemi
PCR primers / probes design from multiple & degenerate sequences
Gemi can be downloaded from the site (https://sites.google.com/site/haithamsobhy/software).
Please, do not hesitate to contact Dr. Haitham Sobhy if you need help.
Gemi, an automated, fast, and easy-to-use bioinformatics tool with a user-friendly interface to design primers and probes for polymerase chain reaction (PCR). Gemi accepts multiple aligned and long DNA and RNA sequences with degenerate nucleotide (non-A/C/G/T bases). Gemi can be used for quantitative, real-time and conventional PCR (qPCR, rt-PCR, etc.), and Sanger sequencing. Gemi can parse large dataset of sequences efficiently.
Article:
Gemi: PCR primers prediction from multiple alignments
Comparative and functional genomics 2012;2012:783138
DOI: https://doi.org/10.1155/2012/783138
PMID: https://www.ncbi.nlm.nih.gov/pubmed/23316117
PMCID: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3535827/