Ensembl data is available through a number of routes:
All data produced by the Ensembl project is freely available for your own use.
This is the ideal option if you want a short sequence as a FASTA file, or a GFF file of a few features in a region. Simply find your desired feature or region, click on one of the "Export..." links in the left-hand menu, and select your output options.
We respectfully request that users do not script against the export pages on the Ensembl website, as this degrades the service for other web servers. The public MySQL server (see below) is provided specifically for this purpose. Thank you.
Ensembl maintains two public MySQL database servers, which you can access as user 'anonymous'.
This server hosts the same Ensembl databases as www.ensembl.org. There are two options for retrieving data from this server:
Mart data is stored on a separate server. You can extract data using a MySQL client program; note that non-standard ports are used:
All of the data used on the main Ensembl website can be downloaded from our public FTP server. Please be aware that these files can run to many gigabytes of data.
For a list of which databases are needed for an Ensembl mirror site, please see the website installation instructions.
As well as acting as a DAS client to incorporate external data, Ensembl now acts as a DAS server, giving access to genomic sequences, the latest Ensembl gene predictions, and for some species, karyotypes and ditags. How to use Ensembl-DAS.
Ensembl supports downloading of many more correlation tables via the highly customisable BioMart data mining tool. You may find exploring this web-based data mining tool easier than extracting information from our normalised database dumps.