I got a modded GC which everytime I turn it on it loads a Swiss 0.6 interface, Google says it is some kind of emulator inside the GC, is it allowed to run this game?

Sorry for the late response. I believe it'd be allowed, as long as the game is played vanilla. You may have to specify that you used an emulator in your submission(s).

I swiss isnt an emulator it is just like the homebrew channel for the wii. Booting the game on GC via a dumped ISO instead of the disk would be the same as running the dumped ISO on nintendont which afaik isnt considered emulation.