My story's set in the US in the early years of the 21st century, so I'd prefer films released no later than 2003 (which rules out Densha Otoko for one) but I could fudge that a little; any time before that is great, however far back in cinema history. Any genre or none is fine, but ideally I'd like sci-fi or horror. Animated films would do fine.
I've dug about on Google (not helpful; I tried several queries and almost all the hits I got were nonfiction - news clips or Youtube clips), and sifted through plot keywords ('train station' / 'railway' + 'Japanese') on IMDB. Here's what I have so far:
Manin densha (A Full-Up Train)
Does anyone out there know of any others? edit: I should stress that I mean films featuring real Japanese railways and stations, not fictional ones.