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Azure AD Connect and Azure DNS for both Public and Private DNS?

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I have Migrated all of our Public Facing Domain names to Azure DNS. So all of our Public IPs are being returned for all of the domain names.  This is working fine. 

 

I'm not looking to use Azure AD Connect to Sync our AD to Azure. Possible I have not read that Far in the Documentation, though is there a way to Separate out the Public and Private DNS Zones with Azure AD Sync Integration?

 

We host 35 Domains and each had Mail/Web Servers associated with them. If I use AD Connect will the DNS get Messed up with the Public and Private Addressing?