PerlPrimer is a GUI application that designs
primers for standard PCR, bisulphite PCR,
real-time PCR (QPCR), and sequencing. It aims to
automate and simplify the process of primer
design. Current features include calculation of
possible primer-dimers, retrieval of genomic or
CDNA sequences from Ensembl (including both
sequences automatically for QPCR), the ability to
BLAST search primers using the NCBI server, ORF,
and CpG island detection algorithms, the ability
to add cloning sequences to primers, automatically
adjusted to be in-frame, and QPCR primer design
without manual intron-exon boundary entry.
