Cortexa research tool·genomics·dfam

Dfam Get Annotations

Get transposable element (TE) annotations for a genomic region from Dfam. Returns all TE/repeat element hits in the specified chromosomal region including family name, type (SINE, LINE, DNA, LTR, Satellite), strand, bit score, E-value, and alignment coordinates. Useful for analyzing repeat content of a genomic locus, identifying TEs near genes, or studying TE distribution. Example: chr1:10000-50000 in hg38 returns hits including TAR1 satellites, L1MC4a LINEs, MER5B DNA transposons, MIR1 SINEs.

Livelast probed 2026-05-01 01:00Z· 137msCortexa

Status

The most recent probe succeeded. Safe to call from the agent today.

Last probed: 1d ago
Last success: 1d ago
Last latency: 137ms

Schema

JSON Schema the agent (or your API call) must match.

{
  "properties": {
    "assembly": {
      "description": "Genome assembly name (default 'hg38'). Options: 'hg38', 'hg19', 'mm10', 'mm39', 'dm6', etc.",
      "type": "string"
    },
    "chrom": {
      "description": "Chromosome name (e.g., 'chr1', 'chr17', 'chrX').",
      "type": "string"
    },
    "end": {
      "description": "End position.",
      "type": "integer"
    },
    "nrph": {
      "description": "Non-redundant profile hits only (default true). Set false for all hits.",
      "type": "boolean"
    },
    "start": {
      "description": "Start position (0-based).",
      "type": "integer"
    }
  },
  "required": [
    "chrom",
    "start",
    "end"
  ],
  "type": "object"
}

Examples (1)

Default Dfam Get Annotations call

public-safeinput

{
  "chrom": "",
  "end": 1,
  "nrph": false,
  "start": 1
}

Expected response keys: success

Anonymous-safe example. Rate-limited; no sign-in required.

Identifiers

Catalog ID: tu_Dfam_get_annotations
Tool name: Dfam_get_annotations
Added: 2026-05-01 00:58Z
Tags: tooluniverse

Dfam Get Annotations

Livelast probed 2026-05-01 01:00Z· 137msCortexa

Schema

JSON Schema the agent (or your API call) must match.

{ "properties": { "assembly": { "description": "Genome assembly name (default 'hg38'). Options: 'hg38', 'hg19', 'mm10', 'mm39', 'dm6', etc.", "type": "string" }, "chrom": { "description": "Chromosome name (e.g., 'chr1', 'chr17', 'chrX').", "type": "string" }, "end": { "description": "End position.", "type": "integer" }, "nrph": { "description": "Non-redundant profile hits only (default true). Set false for all hits.", "type": "boolean" }, "start": { "description": "Start position (0-based).", "type": "integer" } }, "required": [ "chrom", "start", "end" ], "type": "object" }