That’s certainly an option, even though the MCU has tended to avoid story filtering upwards from the TV shows to the movies, and the whole drive to get Inhumans to replace the X-Men is dead now that the deal with Fox has gone through. 

If I were going to do it, I’d start from the Sokovia Accords: world governments were freaked out enough by a small team of superheroes, several of whom are baseline humans, and many of whom are sui-generis accidents, that they passed a global registration initiative, backed up by black site prisons, indefinite detention, and UN-backed death squads. 

Now all of the sudden there is an entire population of people who are born superheroes, no one knows how many of them there are, and their most prominant public figure is Magneto, who’s loudly proclaimed that he views the Sokovia Accords as a genocidal threat to his people.