PSC: Primer Specificity Checking program

PSC: a Primer-Specificity-Checking program to improve PCR efficiency

Introduction: The PSC program is designed for evaluating primer specificity in PCR by checking the matching ability between the primer and DNA template. This program can predict most of the possible amplicons including both the specific and non-specific PCR products. See readme for details.

Usage: The user needs to select the species database (default is Human RefSeq), the word size (default is 11), the range of target amplicon size for display (default is 0~5kb), and most importantly, input the forward primer and backward primer for routine PCR or multiple primers for multiplex PCR. Then click the 'submit' button.

Please select the species and database for virtual PCR analysis (multiple selections allowed):

H.sapiens	D.rerio	S.cerevisiae	Patent_nt
M.musculus	A.thaliana	Escherichia coli	Other_genomic
R.norvegicus	D.melanogaster	Environmental_nt	bacterial_eight
Gallus gallus	C.elegans	Sequence tag site	viral_HBV

Please select word size for minimum matching length between primer and template:

Please select amplicon size to display: between and

Please input the primer sequences (a forward primer coupled with a backward primer) for routine PCR analysis:

(Description: The following input-box is used to evaluate the a pair of primers for routine PCR analysis. If the user needs to analyze multiple primers for multiplex PCR, please use the advanced mode below.)

Please input the forward primer sequence:	Please input the backward primer sequence:
5'-GGACTCATTATTTCAGGCAACAG-3'	5'-CCACTCGAATATCTCCAGTCAAC-3'

Please input the primers sequences for multiplex PCR analysis (FASTA format. No limitation for the numbers of primer sequences.):

(Description: The following input-box is used to evaluate multiple primers for multiplex PCR.)

Related resources for primer evaluation, design and collection:

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