According to two senior members of the Muslim Brotherhood, 61-year-old Morsi is being held at a military facility with top aides, media reports said today.
The military also confirmed that it is holding Morsi.
Muslim Brotherhood spokesman Gehad El-Haddad said the deposed president was under "house arrest" at the presidential Republican Guard headquarters in Cairo.
He said some members of Morsi's inner circle have also put under house arrest.
The Egyptian police said it has orders to arrest 300 leaders and members of Morsi's Muslim Brotherhood.
The head of Egypt's armed forces yesterday ousted Morsi just one year after he was elected as the country's first democratically elected president in 2012 after nearly three-decades authoritarian rule of strongman Hosni Mubarak.
Egyptian army commander General Abdel Fattah Sisi on state television issued a declaration suspending the Constitution and appointing the head of the Supreme Constitutional Court, Adly Mansour, as interim head of state.
Sisi called for presidential and parliamentary elections, a panel to review the constitution and a national reconciliation committee. He said the roadmap had been agreed by a range of political groups.
The move came after Islamist leader refused to quit following the end of a 48-hour deadline set by the army to resolve the political crisis that arose after millions of Egyptian demanding his resignation took to the streets.
Egypt's iconic Tahrir Square, the hub of the anti-Morsi protesters -- erupted into ecstasy as the military announced his outer.
Morsi's statement stressed that he remains the head of state and the supreme commander of the armed forces.
At least 10 people were killed when opponents and supporters of Morsi clashed after the army announced of his removal, taking the number of deaths to 50 since Sunday when protesters started the mass movement against the Islamist leader.
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