Technically this is not a scanner thread as much as it is a "which side is the emulsion" thread, so you should be ok.
A lot of slide film has a relief on the emulsion side, or if that isn't the case for you, the non emulsion side has more shine.
You should generally put the emulsion towards the lens of the scanner, but different scanners have different requirements. My Nikon scanner for example requires the emulsion down, while most flatbed scanners require the emulsion to face up, although I scan with them down and then flip the image.
Hope that helps you.