QIAseq targeted DNA panels - customizable 

QIAseq Targeted DNA Panel (96)

The QIAseq Targeted DNA Custom Panel Builder is an online tool used to build custom panels for targeted sequencing. The builder can be used to target genes, specific exons, hotspots or any genomic region of interest in the human genome. The “Design for gene” option allows you to target exonic regions of genes, while the “Design for genomic coordinates” allows you to define genomic coordinates to target specific genomic regions such as hotspots or individual exons.


  • The builder spaces primer binding sites by a maximum of 150 bp whenever possible, to enable efficient enrichment of FFPE and cfDNA samples.
  • When you specify gene symbols, the builder adds 5 bp of flanking intronic region around each coding exon to the target region.
  • The builder archives all of your custom panels for easy reordering or retrieval of panel specifications.
  • The builder uses GRCh37 as the reference genome.

The custom panel builder can be used to create:

  • Custom panels – input your own content, such as genes or genomic coordinates, to build a custom panel
  • Extended panels – add up to 100 primers to any cataloged panel to extend its content
  • Booster panels – design a spike-in panel to either extend the content of a custom panel, or boost coverage across specific genomic regions of any panel

The custom panel builder outputs several BED files:

  • Primers-150 bp: shows the expected coverage from 150 bp fragments
  • Primers-250 bp: shows the expected coverage from 250 bp fragments
  • ROI: region-of-interest
  • ROI-not-covered-150 bp: shows genomic regions of ROI not covered based on 150 bp fragments
  • ROI-not-covered-250 bp: shows genomic regions of ROI not covered based on 250 bp fragments

The reason there are two bed files is that from each primer, the protocol produces fragments of lengths between about 20 bp and 1,000 bp. The distribution of fragment lengths depends on sample quality. The 150 and 250 bp BED tracks are just illustrative. For poor sample qualities, the protocol will produce more 150 bp than 250 bp fragments. For fresh, undamaged samples, the protocol produces a lot of fragments 250 bp and up. The peak of the distribution is often around 175 bp, but the distribution peak depends highly on sample quality.

Please log in to create a custom product.

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Enter genomic coordinates

Define regions such as specific exons, certain mutation regions, introns, UTRs, etc…. Genomic coordinates are required.
Genomic format accepted:
Chromosome start stop (Example: chr1 100326942 100327378)
One line for each chromosome and location. Comma, semicolon or tab stop are also accepted as separator.
Please enter all required regions at once. Results will be added to your already selected list of genes
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