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Yes, this is a supported scenario. When you setup your Transport Nodes include a VLAN type Transport Zone in addition to the Overlay TZ using the same N-VDS. Then you have to create on Logical Switch (or segment) for each VLAN you have in the VLAN TZ and specifying the VLAN number. Then you change the VMs PortGroup to this Logical Switch.
I would suggest getting a time window for the migration first, then nvds can "be" with the vds so for the communications be sure to tested all the uplinks and VIFs, for the migration os the dVPort Groups to the LS just make sure everything is ok from the physical network MTU etc., and Finally if you don't feel very comfortable with nvds or the team that is going to operate then just leave if that is the case with the overlay networking in the nvds after some time move everything to this.
Thanks so much for your inputs.