The army announced before the bombing that five rockets were allegedly launched from the Gaza Strip.
The Israeli military says it has launched an airstrike hitting Palestinian militants behind an earlier drone attack from the Gaza Strip.
A security source in Gaza said Israeli "warplanes raided four positions" of the Al-Qassam Brigades, the Hamas military wing, in central and northern Gaza, causing damage but "no injuries".
Since the outbreak of protests on the Gaza border previous year, Israel has intermittently taken a number of steps to stem outbreaks of violence from the coastal territory, such as closing border crossings, cutting fuel shipments, and reducing the permitted fishing area off the coast of the Strip.
The truce was negotiated by Egyptian and United Nations officials with aid from Qatar to end several severe flare-ups of violence in recent months.
Israel has also launched three major wars against the enclave since 2008, killing thousands of Gazans each time and shattering the impoverished territory's already poor infrastructure.
While weekly protests are mainly organised by Hamas, which has been governing the Gaza strip since 2006, other Palestinian factions also organise the marches through The March for the Right of Return Commission which started early in 2018.
The Israeli army said it used "riot dispersal means".
Palestinians have held weekly rallies in the area since past year to protest the siege on the enclave and stress the right to return of the refugees who have fled Israeli aggression since 1948.
The Israeli strikes late Saturday came after two days of cross-border exchanges of fire in which two Palestinian teenagers were killed.
More than 200 Palestinians and an Israeli soldier have been killed during the marches, which had been subdued in recent months after mediators brokered an unofficial cease-fire.