The California Highway Patrol says the driver drove around the downed railroad crossings on East Conejo near Peach Avenue.
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An Amtrak train then collided with the car, launching it about 200 feet up the tracks.
The driver, later identifed as 48-year-old Danny Shelton, died at the scene.
His passenger rushed to a local hospital, where officals said she later died.
Investigators have not yet identiified the woman.
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None of the 1,300 passengers on the train were hurt.
The CHP is investigating the crash.