Provided you don’t change the timing of the master sequence, you can do this with nested sequences.
1) Take your master seq and nest it in a new seq.
2) Trim the nested master seq to the desired length (markers might make this easier).
3) Create a new sequence and repeat 1 and 2 for each area you want to render out separately.
4) Select each sequence in the project window and hit File > Export > Media. Since you’ve selected more than one sequence, you will be forced to send the renders to the Adobe Media Encoder queue.
The caveat: things will get a bit messy if you doing any ripple-editing on the master sequence…