The deal will allow Fandango to monetize the clips MovieClips has licensed and direct fans to its own website.
Fandango, which sells tickets for more than 23,000 screens across the United States, did not provide financial details of the deal.
"The combination of Fandango's ticketing platform with MovieClips' highly engaged audience creates a powerful proposition for movie marketers and promotional partners looking to reach a massive entertainment audience," Fandango said in a statement on Thursday.
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Fandango bought Quantum Loyalty Solutions last year to expand its existing promotional services that enable ticket owners to enter a sweepstakes to win a car, get a free iTunes download and other incentives.
(Disclosure: Comcast is the owner of NBCUniversal, the parent company of CNBC and CNBC.com.)