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Once Main Phase 2 (or Main Phase 1 if no Battle Phase was conducted) has been completed, play proceeds to the End Phase. Any card effects that resolve in this Phase now take effect, such as "Change of Heart" or "Brain Control". The Turn Player gets to decide in which order any effect resolves.
If the Turn Player has more than six cards in his hand at this time, he/she must discard to the Graveyard as many cards as necessary in order to get back to six. This action is the very last thing to happen in any End Phase.
If an action is to be taken "at the end of the End Phase", such as the wear-off of the temporary 3000 ATK boost of "Theinen the Great Sphinx", it is, predictiably, the very last thing to happen in this Phase.