You do not need anything deposited. Once you change your DNS in your system settings, all you do is go to gts. Thats it. Simple as that. As soon as you get to GTS the game will load for 10 seconds and your Pokemon will magically appear. It doesn't need to be in your pokedex. You don't need to deposit anything in the GTS, or request anything. If you want to transfer it over to X and Y, put it in Box 1, and make sure it is the only Pokemon in Box 1.