QPRIMER: a quick web-based application for designing conserved PCR primers from multigenome alignments.
We have developed a quick web-based application for designing conserved genomic PCR and RT-PCR primers from multigenome alignments targeting specific exons or introns. We used Pygr (The Python Graph Database Framework for Bioinformatics) to query intervals from multigenome alignments, which gives us less than a millisecond access to any intervals of any genome within multigenome alignments. PRIMER3 was used to extract optimal primers from a gene of interest. QPRIMER creates an electronic genomic PCR image from a set of conserved primers as well as summary pages for primer alignments and products. QPRIMER supports human, mouse, rat, chicken, dog, zebrafish and fruit fly.


BACKGROUND
http://www.bioinformatics.ucla.edu/QPRIMER/.
Kim
Namshin
N
Center for Computational Biology, Molecular Biology Institute, University of California, Los Angeles, 90095-1570, USA.
Lee
Christopher
C
D000465:Algorithms; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D017124:Conserved Sequence / Q000235:genetics*; D017931:DNA Primers / Q000235:genetics*; D020407:Internet; D008969:Molecular Sequence Data; D016133:Polymerase Chain Reaction / Q000379:methods*; D016415:Sequence Alignment / Q000379:methods*; D012984:Software
D017931:DNA Primers