During his controversial Cannes press conference in May, the director joked that Dunst and her Melancholia co-star Charlotte Gainsbourg would both appear in the movie.
"We just want to have a lot of very, very, very unpleasant sex and that's what I'm writing right now," he quipped. "It's going to be three or four hours long..."
Asked if there was any truth to von Trier's comments, Dunst told Digital Spy: "No, I'm not working with him on his next film, but I would work with him again."
Dunst's Melancholia co-star Stellan Skarsgård has claimed that von Trier had approached him to be the lead in Nymphomaniac.
The director previously confirmed plans to show full penetrative sex in the film and said that it would have "a lot of sex in it and also a lot of philosophy".
Of the suggestion that von Trier is a misogynist, Dunst said: "That's really odd to me because he's one of the great auteurs of our time and he's one of the only ones writing scripts for women.
"Yes, they might be his emotions, but he feels more comfortable and connected to a woman portraying him, so how is that misogynistic at all? I don't understand."
Watch our Melancholia video interview with Kirsten Dunst below: