Cortexa research tool·structure·dna_tools

DNA Gibson Design

Design Gibson Assembly overlaps for seamless DNA fragment assembly. For each fragment, computes the 5' overhang (from the previous fragment's 3' end) and 3' overhang (from the next fragment's 5' end) based on the specified overlap length (default 20 bp). Returns the modified fragment sequences ready for Gibson Assembly cloning. Use for: seamless cloning, multi-fragment assembly, vector backbone insertion.

Livelast probed 2026-05-01 01:00Z· 91msCortexa

Status

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

Last probed: 1d ago
Last success: 1d ago
Last latency: 91ms

Schema

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

{
  "properties": {
    "fragments": {
      "description": "List of DNA fragment sequences (at least 2). Each must be longer than overlap_length.",
      "items": {
        "type": "string"
      },
      "type": "array"
    },
    "operation": {
      "description": "Operation type",
      "enum": [
        "gibson_design"
      ],
      "type": "string"
    },
    "overlap_length": {
      "default": 20,
      "description": "Overlap length in bp for Gibson Assembly (default: 20 bp). Must be at least 1.",
      "type": [
        "integer",
        "null"
      ]
    }
  },
  "required": [
    "operation",
    "fragments"
  ],
  "type": "object"
}

Examples (1)

Default DNA Gibson Design call

public-safeinput

{
  "fragments": [],
  "operation": ""
}

Expected response keys: success

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

Identifiers

Catalog ID: tu_DNA_gibson_design
Tool name: DNA_gibson_design
Added: 2026-05-01 00:58Z
Tags: tooluniverse

DNA Gibson Design

Livelast probed 2026-05-01 01:00Z· 91msCortexa

Schema

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

{ "properties": { "fragments": { "description": "List of DNA fragment sequences (at least 2). Each must be longer than overlap_length.", "items": { "type": "string" }, "type": "array" }, "operation": { "description": "Operation type", "enum": [ "gibson_design" ], "type": "string" }, "overlap_length": { "default": 20, "description": "Overlap length in bp for Gibson Assembly (default: 20 bp). Must be at least 1.", "type": [ "integer", "null" ] } }, "required": [ "operation", "fragments" ], "type": "object" }