GST Late Fee

Good Morning Members. 

I have filed GSTR for Punjab GSTN, with turnover below 5 crores, on following dates:-

1. GSTR-3B for Mar. 2020 on 4th July 2020.

2. GSTR-1 for 4th quarter 2019-20 on 4th June 2020.

Now while filing GSTR-3B for April 2020, it is showing Late Fee of Rs. 50/-

As per notification, GSTR-1 for 4th quarter can be filed by 17th July 2020 and GSTR-3B for March 2020 by 5th July 2020. Then why portal is asking for Late Fee !!!

Please suggest. Are other members also facing similar problem?

Thanks