I'm not all that imaginative for my answer.
I would assume the Pokemon is just "deleted". :?
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"I'm not afraid of dying; I'm afraid of never having lived." -Rococo
"WELCOME BACK TO THE DCC OF OC&D, WHERE THERE'S WEATHER ALL OVER THE PLACE AND A TOUCH OF DOG MEAT." -LilJz123
"I mean, it's just a perspective of a particular wavelength on the spectrum of light. Big deal." -CarcharOdin