It happened around 11:22 a.m. at the Central Ocean City Union Chapel on 32nd Street and Central Avenue.
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Action News Julianna Torres captured the shocking sight as the steeple blew off.
The historic church has been around since the early 1900s.
Heavy rains were falling Tuesday across New Jersey as Tropical Storm Isaias roared to the north, leaving behind power outages and reports of tornadoes.
Tornado in Cape May County, New Jersey caught on video
Tornado spotted in Marmora, New Jersey
A state of emergency remained in effect and Gov. Phil Murphy said during a briefing the western part of the state would likely get the most rain while the strongest winds would hit the shore.
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A trained spotter saw an apparent tornado in the Cape May County community of Strathmere, the National Weather Service Said.
Viewer video sent to Action News sent video of a tornado in Marmora, New Jersey, which is across the bay from Ocean City.
The state's utilities were reporting 28,905 homes and businesses were without electricity. Crews were staging to restore service once the worst of the weather had passed.
There were no immediate reports of serious injuries.
READ MORE: Tropical Storm Isaias Coverage
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Tropical Storm Isaias leaves hundreds of thousands without power in Philadelphia region
Tornado in Cape May County, New Jersey caught on video
Doylestown Hospital, nearby day care damaged during storm
Heavy rain from Isaias leaves major flooding; multiple rescues made
Neighborhood in Bear, Delaware heavily damaged during storm