Primer Design in Geneious Prime

This primer design series shows how to design PCR primer pairs in Geneious Prime, import existing primers from a spreadsheet or delimited text file, test primers against a target sequence with configurable mismatch tolerance, and add 5' extensions, such as restriction sites or Gateway sites, manually, with Design New Primers, or by editing existing annotations. Four videos, 3 to 6 minutes each.

Import Primers
Design Primers with 5′ Extensions

How to Design Primers

Automatically design PCR primer pairs by setting product size, melting temperature, and hairpin or dimer penalties, or create primers manually. Extract the PCR product, design sequencing primers, and export details as a table.

LENGTH 6 minutes

Import Primers

Import primers into Geneious Prime by typing a sequence manually, or from a spreadsheet or delimited text file with name and sequence columns. Check Determine Characteristics to calculate melting temperature automatically.

LENGTH 3 minutes

Test with Saved Primers

Test primers against a target sequence using Add Primers to Sequence for new primers, or Test with Saved Primers for existing files. Allow mismatches in the binding region, or require an exact match at the 3' end.

LENGTH 3 minutes

Design Primers with 5′ Extensions

Add 5' extensions, such as custom bases, restriction sites, or Gateway sites, to primers manually, with the Design New Primers tool, or by editing existing primer annotations.

LENGTH 4 minutes