Also, the services by an employee to the employer in the course of or in relation to his employment is outside the scope of the new indirect tax regime, it said.
Any club, health and fitness centre membership provided by an employer to its all employees free of charge will not be subject to the GST.
The same would hold true for free housing as part of cost-to-company (C2C) package.
"However, gifts of value more than Rs 50,000 made without consideration are subject to the GST, when made in the course or furtherance of business," the statement said.
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While the GST law does not define gifts, the ministry said for tax purposes gift is something that is made without consideration, is voluntary in nature and is made occasionally.
On the issue of taxation of perquisites, the ministry said the services by an employee to the employer in the course of or in relation to his employment is outside the scope of GST (neither supply of goods or supply of services).
"It follows therefrom that supply by the employer to the employee in terms of contractual agreement entered into between the employer and the employee, will not be subjected to GST," it said.
"It follows, therefore, that if such services are provided free of charge to all the employees by the employer then the same will not be subjected to GST, provided appropriate GST was paid when procured by the employer.
"The same would hold true for free housing to the employees, when the same is provided in terms of the contract between the employer and employee and is part and parcel of the cost-to-company (C2C)," the statement added.