Sri Lankan Navy spokesman Kosala Warnakulasuriya said the clash occurred along the international maritime boundary which divides both countries in the northwestern seas of Mannar.
Navy spokesman said that they had received information about the clash and had sent a navy boat to make inquiries and defuse the situation.
Due to the increasing number of incidents, India and Sri Lanka are due to sign an agreement on drawing a fishing boundary in the Palk Strait that would put an end to recurring attacks.
Several clashes between Indian and Sri Lankan fishermen have been reported, with Colombo accusing Indian fishermen of poaching by crossing into their territory near Katchatheevu, known for its rich fish wealth.
Katchatheevu is an islet ceded by India to Sri Lanka in 1974.