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Getting started

TeselaGen Primer Architect designs primers for targeted-sequencing applications — amplicon panels, tiling schemes, and single PCR primer pairs. The result is a multiplex-ready primer set you can hand straight to a synthesis vendor or load into a Opentrons / Hamilton / Echo deck.

Three flows, one tool

  • Gene panel — give it a list of genes (or pick a disease) and it covers every exon with multiplex-ready primers.
  • Tiling scheme — for whole viral/bacterial references: overlapping amplicons across the entire sequence.
  • Single PCR pair— for one region. Uses TeselaGen's quality presets for Tm, GC content, and 3'-end stability.

Your first design

  1. From the home page or the tool library, click Start a design.
  2. Pick the reference genome — primer design runs on Human (GRCh38), Mouse (GRCm39), E. coli K-12 and Yeast (R64-1-1). The other curated assemblies (pig, chicken, zebrafish, drosophila, and more) and your own uploaded FASTAs already work in the Off-target analyzer; design on them is coming soon.
  3. Pick a target gene — directly by symbol/alias, or via a curated disease association.
  4. On the gene track, drag to choose the base range to amplify, or leave the default of the full gene.
  5. Tune the scheme parameters (amplicon size, pool count, overlap) and click Design primer panel.
  6. After ~30 s – 5 min you land on your results page with the full primer list, pool breakdown, and amplicon map. Two extra checks are one click away: Off-target (bowtie2 against the chosen genome) and Variants(gnomAD common-variant scan against each primer's 3' end). Export to BED, TSV, CSV, or a robot-ready format.

Sign in

An account is required to run the design wizard and the off-target analyzer. Signing in also lets you save designs, share them with collaborators, upload your own reference genomes, and generate REST API keys. Use the sign-in page. Sessions last up to 7 days; API keys expire after 365 days.

Standalone tools

Beyond the design wizard, the tool library ships an off-target analyzer for vetting a batch of primers without running a full design, and the predesigned panel library for cloning a curated cancer-hotspot or pharmacogenomic panel as a starting point. Single-primer thermodynamic checks (hairpin, dimer) live in our open-tools site — they aren't panel-design-specific.