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Invitation to test MethPrimer 2.0
Paste an ORIGINAL source sequence. Try this Sample sequence
You don't need to modify your sequence (e.g. convert 'C' to 'T') before pasting.
Pick primers for bisulfite sequencing PCR or restriction PCR .
Pick MSP primers.
Use CpG island prediction for primer selection? Window
 Shift
 Obs/Exp
 GC%

General Parameters for Primer Selection
Sequence name (optional):
Target (optional): "start, size", such as (560, 30)
Excluded Regions (optional): "start, size", such as (160, 50 1100, 50)
Number of output pairs (optional):

Product Size: Min: Opt: Max:
Primer Tm: Min: Opt: Max:
Primer Size: Min: Opt: Max:
Product CpGs: Primer Poly X:
Primer non-CpG 'C's: Primer Poly T:

Parameters for MSP primers
3'CpG constraint:
CpG in primer:
Max Tm difference:

Please send bug reports, feature requests using this Feedback form
How to cite MethPrimer: Li LC and Dahiya R. MethPrimer: designing primers for methylation PCRs. Bioinformatics. 2002 Nov;18(11):1427-31. PMID: 12424112