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ensembl-database

Query the Ensembl database to resolve gene, transcript, and protein IDs, fetch genomic or protein sequences, retrieve gene structures (exons), and get variant consequence and effect predictions (VEP). Use this skill as a primary ID translator, genomic sequence database and variant effect prediction tool.

skills/ensembl_database/SKILL.md

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Oct 23, 2026
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Apache-2.0

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# Ensembl Database: ID Mapping and Genomic Features

## Prerequisites

1.  **`uv`**: Read the `uv` skill and follow its Setup instructions to ensure
    `uv` is installed and on PATH.
2.  **User Notification**: If .licenses/ensembl_database_LICENSE.txt does not
    already exist in the workspace root directory then (1) prominently notify
    the user to check the terms at https://useast.ensembl.org/index.html and
    https://github.com/Ensembl/ensembl-rest/wiki, then (2) create the file
    recording the notification text and timestamp.

## Overview