Deputies were called at about 5:30 a.m. to the shooting on West Road at Queenston.
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SkyEye captured video at the scene which showed the passenger side windows of the Toyota hit with at least three bullet holes.
Sheriff Ed Gonzalez said a man was shot and taken by Life Flight to a hospital. The suspect drove off from the scene.
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Deputies blocked the northbound and southbound lanes of Queenston Road. Drivers are asked to avoid the area.