1001 Genomes: Natural Variation
arabidopsis_natural_variationRead-onlyIdempotent
Retrieve per-SNP effect data from 1001 Genomes for an Arabidopsis locus, showing variation across 1135 natural accessions. Returns effects, impacts, and amino-acid changes.
Instructions
Fetch 1001 Genomes natural-variation SNP effects for an Arabidopsis locus (tools.1001genomes.org; free, no key) — the variation observed across 1135 resequenced natural accessions. Returns per-SNP effect rows (chromosome, position, accession id, effect, impact, amino-acid change, transcript) plus the gene's genomic span. variant_count is the true row total even when capped. ARABIDOPSIS-ONLY — any other organism raises OrganismNotSupported. Defaults to arabidopsis_thaliana.
Input Schema
TableJSON Schema
| Name | Required | Description | Default |
|---|---|---|---|
| locus | Yes | Arabidopsis AGI locus, e.g. AT1G01060 (a bare AGI is transcript-scoped to .1) | |
| organism | No | Arabidopsis only (the 1001 Genomes panel is A. thaliana) | arabidopsis_thaliana |
Output Schema
TableJSON Schema
| Name | Required | Description | Default |
|---|---|---|---|
| found | Yes | True once the effects endpoint returned 200 | |
| locus | Yes | ||
| region | No | Genomic span, e.g. 'Chr1:33666..37840' | |
| organism | Yes | Always arabidopsis_thaliana | |
| returned | Yes | Effect rows returned (post-cap) | |
| variants | No | Per-effect {chr, position, accession_id, effect, impact, amino_acid_change, …} | |
| truncated | Yes | True if the effect list was capped | |
| transcript | Yes | Transcript-scoped gene id used (e.g. AT1G01060.1) | |
| variant_count | Yes | Total effect rows (pre-cap) |