Detectives are questioning a woman over the death of the boys, thought to be her sons, at a house in the Goulburn Valley town of Mooroopna on Sunday evening.
Police discovered the boys' bodies in the bedroom of a house in Kalimna Drive, Mooroopna, near Shepparton, about 190km north of Melbourne.
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A 29-year-old Mooroopna woman was arrested at the scene and taken to Shepparton police station.
A Victoria Police spokeswoman could not confirm the relationship between the woman and the boys or the nature of the injuries suffered by the boys.
Police are awaiting the results of a post mortem to determine the cause of the two deaths.
