The virus was detected in the 23-year-old man from Lahore. The patient is a resident of Gulberg area.
The health authorities said that the patient came from Sindh and has no history of travelling abroad.
Samples of more than 10 suspected cases of omicron were sent to National Institute of Health, Islamabad. Only one returned positive, Punjab health department said.
This comes just two days after Islamabad reported first case of omicron variant.
On Saturday, the district health officer of the capital city confirmed that the patient, a man, has been quarantined. The patient has no international travel history but he recently flew to Karachi, Dr Zaeem Zia said.
Last week, at least 32 omicron cases were reported in Balochistan’s Kalat. They have, however, not been confirmed by the National Command and Operation Center (NCOC) yet.
Dr Naqibullah Niazi, the in-charge of the Covid-19 operation cell, said samples have been sent to the National Institute of Health for genome sequencing. The rate of the spread of coronavirus in Kalat has increased more than 5% after several months, he added.