A woman on Monday alleged that she was not allowed to enter the Golden Temple in Amritsar Punjab because of her face painting of an Indian flag, the NDTV report said.
The video of the incident has gone viral on social media.
A guard at the holy Sikh shrine can be seen saying "It's Punjab" when confronted by another man accompanying the woman who asks "Is this not India?".
The video, shot by the woman on a phone, shows them repeatedly asking the guard if it was not India and the guard aggressively nodding in disagreement.
The video ends with the guard trying to snatch the woman's phone when she tells him was saying bizarre things. The woman is visible just for a fleeting second at the start of the clip, but can be heard.
The Shiromani Gurdwara Parbandhak Committee, which administers the Golden Temple, has apologised for the official's misbehaviour but claimed the painting on the woman's face wasn't an Indian fag as it didn't have the Ashoka Chakra, said the report.
"This is a Sikh shrine. Every religious place has its own decorum...We welcome everyone...We apologise if an official misbehaved...The flag on her face was not our national flag as it didn't have Ashoka Chakra. It could have been a political flag," the report quoted Gurcharan Singh Grewal, General Secretary of SGPC as having said.