# Ensembl MCP Server

> Use this tool when you need to integrate large-scale genomic data into AI applications, such as querying gene information or retrieving sequence data across multiple species. The Ensembl MCP Server provides a Model Context Protocol interface for LLMs to access the Ensembl genomics database, solving problems in bioinformatics and genomics research. It takes in queries and returns relevant genomic data, enabling AI assistants to make informed decisions in fields like genetics and biotechnology.

Canonical page: https://skillsregistry.net/skills/effieklimi-ensembl-mcp-server  
JSON: https://api.skillsregistry.net/v1/skills/effieklimi-ensembl-mcp-server

## Description

A Model Context Protocol server providing LLMs with access to the Ensembl genomics database, enabling AI assistants to query gene information, sequences, variants, and other genomic data across multiple species.

## Trust

- **Trust score (0–1):** 0.89
- **Verification tier:** verified
- **Last scanned:** 2026-09-19

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** mcp-remote
- **Runtime environment:** api
- **Category:** database
- **Updated:** 2026-09-19

## Source

- **Source listing:** [Glama](https://glama.ai/mcp/servers/d6d5z7xuah)
- **Repository:** <https://github.com/effieklimi/ensembl-mcp-server>

## Use it

Resolve this record through the SkillsRegistry MCP server (no auth, read-only):

```
claude mcp add --transport http --scope user skillsregistry https://api.skillsregistry.net/mcp
```

```json
{
  "jsonrpc": "2.0",
  "id": 1,
  "method": "tools/call",
  "params": {
    "name": "get_skill",
    "arguments": {
      "slug": "effieklimi-ensembl-mcp-server"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/effieklimi-ensembl-mcp-server` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/effieklimi-ensembl-mcp-server/pull`

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SkillsRegistry indexes agent skills from public registries and GitHub. Skills we have analysed are scanned with Circle-IR and scored on six dimensions; each listing states its scan coverage. More: https://skillsregistry.net/llms.txt