DNS for two servers under single domain

I have two servers running WHM/cPanel and I'm having difficulty trying to figure out how to configure DNS. So, let's say that my domain name is "mydomain.com". My WHM/cPanel servers are named: server1.mydomain.com server2.mydomain.com Each server maintains its own DNS for the accounts that are hosted on it. Now, at my registrar, I have mydomain.com configured with "custom" nameservers that specify the nameservers for the entire domain. But I want to use ns1.server1.mydomain.com for accounts hosted on server1, and ns1.server2.mydomain.com for accounts hosted on server2. Not sure how to set this up. If I use my registrar's DNS and create A records for the servers (and corresponding ns1/ns2 records), I think that might work. But wouldn't that break AutoSSL? Am I missing something here? Can someone please help. Thanks.