Large-scale genome sequencing projects produce long lists of variants, e.g. missense and nonsense variants, copy number variations, translocations. Not all variants are equally important: some have a direct impact on the phenotype of the cells or organism where these variants are found, e.g. driver mutations in cancer genomes. Others presumably have less or no functional impact, e.g passenger mutations. To identify and characterize functional variants in long sequencing variant lists, we have developed VizVar, a graphical user interface for visualizing functional links between sequencing variants and the genes they are located in. VizVar is a multiplatform GUI (not command line) developed in Qt/C++.