Ensembl

live BioGenomes

Ensembl REST — vertebrate genomes, gene annotations, sequences, comparative genomics, variation. Keyless.

7 tools
0ms auth
free tier 50 calls/day

Tools

lookup required: id

By stable id.

Parameters
Name Type Description
id req string —
expand opt boolean —
▶ Try it
lookup_symbol required: species, symbol

Gene by symbol within a species.

Parameters
Name Type Description
species req string —
symbol req string —
expand opt boolean —
▶ Try it
xrefs required: species, symbol

Cross-references for a gene symbol.

Parameters
Name Type Description
species req string —
symbol req string —
▶ Try it
sequence required: id

Sequence by stable id.

Parameters
Name Type Description
id req string —
type opt string —
▶ Try it
homology required: species, symbol_or_id

Homology mappings.

Parameters
Name Type Description
species req string —
symbol_or_id req string —
target_species opt string —
▶ Try it
variation required: species, variant_id

Variation by name.

Parameters
Name Type Description
species req string —
variant_id req string —
▶ Try it
vep required: species, region, allele

Variant Effect Predictor.

Parameters
Name Type Description
species req string —
region req string —
allele req string —
▶ Try it

Test with curl

The gateway speaks JSON-RPC 2.0 over HTTP POST. You can test any pack directly from the terminal.

List available tools
bash 
curl -X POST https://gateway.pipeworx.io/ensembl/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":1,"method":"tools/list"}'
Call a tool
bash 
curl -X POST https://gateway.pipeworx.io/ensembl/mcp \
  -H "Content-Type: application/json" \
  -d '{"jsonrpc":"2.0","id":2,"method":"tools/call","params":{"name":"lookup","arguments":{"id": "example"}}}'

Use with the SDK

Install @pipeworx/sdk to call tools from any TypeScript/Node project.

TypeScript 
import { Pipeworx } from '@pipeworx/sdk';
const px = new Pipeworx();
const result = await px.call("lookup", {"id":"example"});
ask_pipeworx 
// Or ask in plain English:
const answer = await px.ask("ensembl rest — vertebrate genomes, gene annotations, sequences, comparative genomics, variation");