Jepchirchir was one of the favourites for the title having also won the New York marathon last year as well as the Boston Marathon in April this year.
According to reports the 28-year-old runner first felt discomfort last week after which Team Kenya's doctor advised her to rest.
"For sure the hip and the whole leg is painful," she told Nation
"I am so disappointed but I would rather not aggravate the injury since we still have another world event next year before my Olympic title defence at the 2024 Paris summer Games."
Jepchirchir beat compatriot Brigid Kosgei and Molly Seidel of USA to win gold in Tokyo Olympic Games last year.
Kenya will be banking on Ruth Chepngetich who is the defending world champion and has the fastest time this season.
The women's marathon at the worlds will be held on July 18.
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