Design Primer by Region:

This tool is intended for researchers to pick PCR-primers to amplify genomic regions avoiding to overlap with known SNPs/INDELs, using Primer3 as a backend engine. Please select a chromosome and input a range (<10kb, e.g., start: 11000, end: 12000 and chromosome is chr01). All the parameter can be changed if necessary.


Start position:
End position:

Parameter Selection:

Optimal primer size:
Max primer size:
Min primer size:
Optimal primer TM:
Max primer TM:
Min primer TM:
Optimal GC percent:
MAX GC percent:
MIN GC percent:
Max #N's accepted:
Max Poly-X:
Max Internal Poly-X:
Max Self Complementarity:
Max 3' Self Complementarity:
Max Pair Complementarity:
Max 3' Pair Complementarity:
Product Size Ranges: