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Outside of EM, you can just remove the domain from the middleware home. If you are referring removing a domain monitored in EMCC, you can go to the WebLogic Domain target home page for that domain and via the WebLogic Doman target menu navigate to "Target Setup" and "Remove Target". You should then be prompted to remove the target.
what is "EMCC", I do not know this acronym?
EMCC = Enterprise Manager Cloud Control
It is used for managing databases, middleware, applications and other components from a single console.