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Ensembl

Ensembl is a public and open genome browser project that provides access to genome sequences, annotations, and analysis tools across vertebrate and other species. It offers high-quality, integrated annotation of genomes including genes, variants, and regulatory regions. The platform includes tools such as BLAST/BLAT for sequence search, the Variant Effect Predictor (VEP) for analyzing variant consequences, and BioMart for custom data export. Ensembl is developed and hosted by EMBL-EBI.

What it's for

Compare genes across speciesFind SNPs and other variants for a geneView gene expression in different tissuesRetrieve gene sequenceFind a data display for a genomic regionUse your own data in Ensembl (custom tracks)Search genomes for DNA or protein sequence via BLAST/BLATAnalyse your own variants and predict functional consequences via VEPExport custom datasets via BioMart

Features 16

BioMart data-mining tool to export custom datasets
BLAST/BLAT sequence search against genomes
Comparative genomics data: gene trees, protein families and alignments across vertebrate species
Data downloads (FTP access to genome and comparative genomics files)
Genome browser for hundreds of vertebrate and other species
Haplosaurus tool
Mirror sites for the browser
Pangenome support for multiple species (on the new Ensembl platform)
Search across all species, Ensembl genomes, and Vega
Support for adding custom tracks
Variant Effect Predictor (VEP) for predicting consequences of SNPs, insertions, deletions, CNVs and structural variants
Variant Recoder tool
Variation database and regulation database per species
VEP integrates deleteriousness predictions from tools including AlphaMissense, CADD, SIFT, REVEL and SpliceAI
VEP reports gene and variant phenotype associations and population allele frequencies
VEP web interface and command line tool

At a glance

free tierself-hostableAPI

TypeWeb app

DeploymentHybrid

PlatformsWeb

CompanyEuropean Bioinformatics Institute (EMBL-EBI)

Integrations

REVELMaveDBAlphaMissenseSIFTSpliceAICADDgnomAD1000 Genomes Project

Resources

Docs

Pricing

Ensembl offers free software and data. There are no paid plans.