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Ensembl Tools

We provide a number of ready-made tools for processing both our data and yours. We routinely delete results from our servers after 10 days, but if you have an ensembl account you will be able to save the results indefinitely.

Processing your data

NameDescriptionOnline toolUpload limitDownload scriptDocumentation
Variant Effect Predictor
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Analyse your own variants and predict the functional consequences of known and unknown variants via our Variant Effect Predictor (VEP) tool.Tool50MB*DownloadDocumentation
BLAST/BLATSearch our genomes for your DNA or protein sequence.Tool50MBDocumentation
Assembly converterMap (liftover) your data's coordinates to the current assembly.Tool50MB
ID History converterConvert a set of Ensembl IDs from a previous release into their current equivalents.Tool5MB*Download
* For larger datasets we provide an API script that can be downloaded (you will also need to install our Perl API to run the script).

Accessing Ensembl data

NameDescriptionGet it from:Documentation
BioMartUse this data-mining tool to export custom datasets from Ensembl.Ensembl BiomartDocumentation
Ensembl Virtual MachineVirtualBox virtual Machine with Ubuntu desktop and pre-configured with the latest Ensembl API plus Variant Effect Predictor (VEP). NB: download is >1 GBFTP downloadDocumentation
Ensembl REST serverAccess Ensembl data using your favourite programming languagerest.ensembl.orgDocumentation