As a result, streets were flooded and traffic disrupted. When the densely populated capital is used to more than 200 days of sunshine a year.
The Egyptian Meteorological Authority (EMA) issued a warning of unstable weather conditions nationwide, according to local media.
State-media Ahram cited the Egyptian Ministry of Irrigation which said it was ready to deal with the heavy rain.
The number of weather, climate and water related disasters increased by a factor of five over the past 50 years, a recent multi-agency report revealed.
Sub-Saharan Africa has been particularly affected. Countries including, South Sudan, Chad, Cameroon or Nigeria are experiencing worst floods in decades.