In comparison, mutual funds witnessed an outflow of Rs 58,185 crore in May. Prior to that, Rs 1.71 lakh crore was invested in April.
The latest outflow was mainly due to withdrawal of money from liquid or money market funds.
According to data from the Association of Mutual Funds in India (Amfi), investors withdrew Rs 21,535 crore from MF schemes in June 2016.
Generally, liquid funds witness heavy outflow towards the end of March and the trend gets reversed in April as banks and corporates reinvest the surplus, which they had withdrawn to pay their financial and advance taxes.
However, balanced funds and income saw inflow of Rs 2,402 crore and Rs 1,697 crore, respectively.
Money market fund's portfolio comprises short-term (less than one year) securities representing high-quality, liquid debt and monetary instruments.
Overall, the asset base of the country's fund houses slightly slipped to Rs 13,80,747 crore last month, from Rs 13,81,625 crore in May-end.
