PCR Primer Design Tool                                            
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PCR Primer Design Tool

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   Intro & Info

Eurofins Genomics’ PCR Primer Design Tool enables you to design optimal PCR primer pairs using the advanced Primer3 algorithm Primer3 Manual.

The tool analyses your DNA sequence to identify primers with high specificity, efficiency, and product quality. Default parameter settings ensure reliable results, but you can adjust them to customise the analysis to your experimental needs.

You can view detailed Primer3 settings for each input field by clicking the corresponding parameter description, which links directly to the relevant section in the Primer3 manual.

Click “Design Primers” to generate a list of suitable PCR primer pairs.

   PCR Primer Design

Assay Design

Primer Name(s):

1. Target Sequence:


2. Target Sequence:


Design Parameters open / close

1. Target Region:

Start:

End:

2. Target Region:

Start:

End:

Primer 3' GC clamp bases:

Max. Tm difference [°C] between the primers: (default: 3°C)

qPCR Probe Criterias open / close
 

Minimum

Maximum

Probe Length (mer):

Probe GC (%):

Orientation open / close

Please specify the orientation of the qPCR probe on the target sequence:

Sense
Antisense
Primer Criterias open / close
 

Minimum

Maximum

Length (mer):

Primer GC (%):

Tm (°C)

Amplicon Criterias open / close
 

Minimum

Maximum

Size (bp):

GC Content (%):

Tm (°C):

Reaction Conditions open / close

Monovalent salt concentration
(0.1 - 50 mM):

Primer concentration
(0.1 - 50 nM):

Output Parameters open / close

Permit multiple primer binding sites

Yes
No

Sort by Ta of the PCR products

Yes
No


* These fields are mandatory
Design Result
No. Name Sequence Ta Start..End Length GC Tm Order
20 55.0 50.7
Amplicon
xxx
No. Name Sequence Ta Start..End Length GC Tm Order
qPCR Product
xxx
20 55.0 50.7
20 55.0 50.7
No. Name Sequence Ta Start..End Length GC Tm Order
qPCR Product
xxx
20 55.0 50.7
20 55.0 50.7