It doesn't come with the game, but look at those face plates!
http://www.nintendoworldreport.com/news/38507/special-pokemon-new-nintendo-3ds-pack-coming-to-japan
Pokémon Omega Ruby and Alpha Sapphire will have two special New Nintendo 3DS on the day the game launches in Japan.
One version comes with a Black New Nintendo 3DS and has special custom Groundon face plates. The other, a white New Nintendo 3DS, comes with plates features the Pokémon Kyogre. Next to the fancy face plates, both versions come with a theme download code.
Each of them will retail at 19.000 yen and you can order them at a Pokémon Center. An important note is that the system doesn't come with a copy of Pokémon Omega Ruby or Alpha Sapphire, which can be purchased also on November 21.