This is the Linux app named Auto Primer3 whose latest release can be downloaded as AutoPrimer3-3.0.2_installer.exe. It can be run online in the free hosting provider OnWorks for workstations.
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Auto Primer3
DESCRIPTION
PLEASE NOTE: THIS PROJECT PAGE WILL NO LONGER BE UPDATED - PLEASE USE THE GITHUB PAGE (https://github.com/gantzgraf/autoprimer3) TO FIND THE LATEST RELEASE (https://github.com/gantzgraf/autoprimer3/releases/latest).
AutoPrimer3 retrieves gene information, DNA sequences and SNP information from the UCSC genome browser and uses primer3 to automatically design primers to genes or genomic coordinate targets.
Primers may be designed using information from any of the UCSC hosted genomes and primers can be made to avoid overlapping SNPs for genomes where SNP databases are available.
Features
- Automatic design of primers to genes, transcripts or genomic coordinates
- Upload BED or VCF files and design primers to specified coordiantes
- Export primer output to .txt, .csv or .xlsx files
- Automatically avoid designing primers on top of known SNPs
- Automatically check in-silico PCR results for designed pairs
Audience
Science/Research
User interface
JavaFX
Programming Language
Java
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/autoprimer3/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
