Pokémon GO and Pokémon Sun and Moon have been out for quite some time now, but they aren’t compatible with each other yet. However, this could change as Game Freak explores options to implement “some kind of connectivity” between the two. “With Pokémon Go, yeah, we definitely want to have some kind of – at some point – some kind of connectivity, some way the games can interact,” explains producer Junichi Masuda. “A lot of people, of course, knew Pokémon from the animated series, but Pokémon Go reached even way more people than the anime. It’s released in more countries and has reached a much wider audience.
“So, I think a lot of people maybe learned about Pokémon for the first time from Pokémon Go, the core concept of throwing out a Pokéball and catching a Pokémon, so we don’t want to waste that. We want people who picked up Pokémon and learned about it through Pokémon Go to also play Sun and Moon and the main series games. We want to have a kind of way to connect the two, or have a way for people who enjoyed one to enjoy some of their progress in the other. But that will definitely come down the road.”
Source: Game Informer
Pokémon Blog 
This doesn’t say very much but hopefully it will mean we can transfer pokemon and unlock weird moves and hidden abilities.
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