September 15, 2016 (Vol. 36, No. 16)

URL:
http://primerdepot.nci.nih.gov

Rating:
Strong Points: Easy to use, fast results return
Weak Points: No link to original paper or description of methods

Summary:

If you’re looking for a no-frills database for quantitative real time PCR (qRT PCR) primers, the qPrimerDepot is the place to go. This database, described in a 2007 article published in Nucleic Acids Research, provides primers for close to 100% of human RefSeq sequences (99.96%, to be precise). Users search the database by entering either the RefSeq ID or the HUGO gene name. (Sadly, the link to the HUGO nomenclature is broken, though site visitors can hunt down the nomenclature easily enough on their own.) Upon entering a search term, visitors are very quickly greeted with the list of primer sequences, and for each primer pair the primer positions, lengths, GC percentage, melting temperatures, and the sizes for both the cDNA and genomic amplicons are given. (Each primer pair is designed to cross an exon-exon junction spanning one of the largest introns in the gene.)