There's no confirmation that it will be USB 3.1 Gen 1, but logic dictates that Samsung will want to utilize the latest implementation of the USB standard. Other rumors regarding the Galaxy Note 6 suggest dust and water resistance, much like the Galaxy S7 and S7 edge, as well as an iris scanner for authentication.
It makes sense for Samsung to switch to USB Type-C, as it offers faster charging in addition to more bandwidth for data transmission. And you don't have to fiddle around with the connector when you're trying to charge your phone, as USB Type-C is reversible.
The move to the newer standard suggests that we may get to see an upgraded variant of the Gear VR headset this year. What would you guys like to see from the Galaxy Note 6?