The split-level stations at Minffordd in Wales are not only on different routes but they are also different gauges.
The upper station is on the narrow gauge Ffestiniog Railway between Porthmadog and Blaenau Ffestiniog line and the lower one is on the National Rail line between Barmouth and Pwllhelli.
https://en.wikipedia.org/wiki/Minffordd_railway_station