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Good afternoon, under the circumstances yes you would be liable to pay the higher rate of stamp duty. The relief only applies if you are replacing your main residence - however does not apply to rented homes only owned homes. As you will still own the rented house, the new property would be classed as your second property so the higher rate would apply. Hope this helps?
The rented cannot be considered your main residence because you do not live there, you just own it. Many people own a property for investment purposes and remain living at their partners or parents or rented accommodation, so in these circumstances the property you own is not your main residence.