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Glama

Ensembl MCP Server

Server Configuration

Describes the environment variables required to run the server.

NameRequiredDescriptionDefault
REQUEST_TIMEOUTNoSet custom timeout (default: 30000ms)
ENSEMBL_BASE_URLNoOverride default API base URL

Schema

Prompts

Interactive templates invoked by user choice

NameDescription

No prompts

Resources

Contextual data attached and managed by the client

NameDescription

No resources

Tools

Functions exposed to the LLM to take actions

NameDescription
lookup_gene

Get detailed gene information by stable ID or symbol

get_transcripts

Get all transcripts for a gene with detailed structure

search_genes

Search for genes by name, description, or identifier

get_sequence

Get DNA sequence for genomic coordinates or gene/transcript ID

get_cds_sequence

Get coding sequence (CDS) for a transcript

translate_sequence

Translate DNA sequence to protein sequence

get_homologs

Find orthologous and paralogous genes across species

get_gene_tree

Get phylogenetic tree for gene family

get_variants

Get genetic variants in a genomic region

get_variant_consequences

Predict consequences of variants on genes and transcripts

get_regulatory_features

Get regulatory elements (enhancers, promoters, TFBS) in genomic region

get_motif_features

Get transcription factor binding motifs in genomic region

get_xrefs

Get external database cross-references for genes

map_coordinates

Convert coordinates between genome assemblies

list_species

Get list of available species and assemblies

get_assembly_info

Get genome assembly information and statistics

get_karyotype

Get chromosome information and karyotype

batch_gene_lookup

Look up multiple genes simultaneously

batch_sequence_fetch

Fetch sequences for multiple regions or features

MCP directory API

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