TogoVar provides allele frequency, annotation information and related publications of variants in human genome. As Japanese data sets, we made JGA-NGS (125 of Whole Exome Sequencing data) and JGA-SNP (over 180,000 of SNP-chip data). From public data sets, Exome Aggregation Consortium (ExAC) of Broad Institute, 3.5 KJPN of Tohoku Medical Mega Bank and Human Genetic Variation Database (HGVD) of Kyoto University were imported and subjected to searching.