For a number of genomes, Ensembl Genomes provides genomic variation data, including single nucleotide polymorphisms (SNPs) and insertion-deletion mutations (indels) from various sources, for which any effects on transcripts in the area are calculated
In Ensembl Genomes, variant data is imported from EBI resources such as the European Variation Archive (EVA) or the European Nucleotide Archive (ENA) and from a range of third parties. The exact source of variant data is provided on the information page for each genome in the Ensembl browser (e.g. A. thaliana).
Ensembl Genomes uses the Ensembl variation platform for data storage and display/dissemination, allowing variation data to be accessed using the REST and Perl APIs, and BioMart.