Meanwhile, Israeli security officials advised Israeli tourists in the neighbouring Sinai peninsula in Egypt to return home immediately.
The rocket landed on a greenhouse in Yuval, a town in Israel's southern Eshkol region that borders Egypt and the Gaza Strip. No injuries were reported but one person was treated for shock.
A military spokesman said it was sacked from Sinai.
The recent terrorist attacks on Egyptian churches in different provinces are motivated by the decline of the Sinai-based affiliates of the Islamic State militant group in the Sinai Peninsula due to massive security campaigns, said Egyptian security and political experts.
This is published unedited from the IANS feed. But southern Sinai, with its pristine beaches and Red Sea coral reefs, has traditionally been a popular Israeli tourist destination - especially for secular Israelis during the Passover holiday.
Rocket alert sirens were activated in the area to warn of the incoming projectile attack.
At least 44 people were killed and more than 100 injured in the attacks on two Coptic churches on the Christian holiday Palm Sunday.
Yisrael Katz, Israel's transportation and intelligence minister, said in a statement Monday there was intel regarding a potential "terror attack" against tourists in the Sinai peninsula.
Later the same day, Daesh - speaking via a social-media account linked to the group - claimed responsibility for the attack. The attacks, carried out by suicide bombers and claimed by the Islamic State, came as worshipers had gathered for Palm Sunday ceremonies. It only applies to Israeli citizens; foreigners will be allowed to cross the border.
Islamic State claimed responsibility for the bombings and promised more attacks on Christians.
Egypt and Jordan are the only Arab countries that have signed a peace treaty with the Jewish state.