The notification also stated that a disciplinary action will be taken by department heads against those employees who leave the office without permission during the lockdown.
It also warned that an employee will lose pay for an entire week if he/she remains absent during the assigned day.
However, in case an employee has to be present in the office for more than a day every week, his salary would be cut only on the days he remained absent, the notification said.
The order will come into effect from June 8. The coronavirus-triggered lockdown is in force till June 30.
The notification was issued after it came to light that employees were not reporting to work during the lockdown and some had even left for their hometowns.
At present, government offices are functioning with 5 per cent staff or 10 persons, whichever is more.