the branch purchase and an increase in incentive compensation accruals correlating with the increase in revenues and earnings.
The Company’s efficiency ratio was 53.4% in the third quarter of 2020, compared with 48.1% in the second quarter of 2020 and 80.6% in the third quarter of 2019.
Income Taxes
The Company recorded income tax expense of $3.2 million for the third quarter of 2020, representing an effective tax rate of 24.9%, compared to 24.1% for the second quarter of 2020. The increase in effective tax rate in the third quarter of 2020 was primarily attributable to adjustments related to the vesting of restricted stock award.
Loan Portfolio
Total loans, including mortgage loans held for sale, were $1.60 billion at September 30, 2020, an increase of $103.6 million from the end of the prior quarter, and an increase of $603.8 million from September 30, 2019.
Total loans held for investment, were $1.51 billion at September 30, 2020, an increase of 5.9% from $1.42 billion at June 30, 2020, and an increase of 63.1% from $924.4 million at September 30, 2019. The increase in total loans held for investment from June 30, 2020 was primarily due to growth in the 1-4 family residential, commercial real estate, and construction portfolios.
PPP loans were $206.1 million at September 30, 2020, an increase of 0.8% from $204.6 million at June 30, 2020. As of October 16, 2020, the Company has submitted loan forgiveness applications for $85.2 million and received $2.1 million from the Small Business Administration.
Deposits
Total deposits were $1.56 billion at September 30, 2020, compared to $1.41 billion at June 30, 2020, and $1.11 billion at September 30, 2019. The increase in total deposits from June 30, 2020 was attributable to an increase in money market, time, negotiable order of withdrawal and non-interest bearing deposits.
Average total deposits for the third quarter of 2020 increased $420.6 million, or 40.4%, from the third quarter of 2019 and $153.6 million, or 11.7%, from the second quarter 2020.
Borrowings
Federal Home Loan Bank (“FHLB”) and Federal Reserve borrowings were $222.1 million at September 30, 2020, compared to $222.3 million at June 30, 2020, a decrease of $0.2 million from the end of the prior quarter, and an increase of $212.1 million from September 30, 2019. The increase from September 30, 2019 is attributable to participation in the Paycheck Protection Program Loan Facility from the Federal Reserve in the amount of $204.1 million. Borrowing from this facility is expected to match the balances of the PPP loans.
Assets Under Management
Total assets under management increased by $378.8 million during the third quarter to $6.13 billion at September 30, 2020, compared to $5.75 billion at June 30, 2020, and $6.12 billion at September 30, 2019.