You don't really need the J32A2 engine. The standard Accord J30 should mate up to the 6 speed just fine.

A tranny new shoud not run much over $2000-3000.00
I would assume $4000.00 for it at most. Find a dealer willing to sell you parts for cost aswell many won't do it, but if you make friends with the kid running the parts counter it is possiable. It's just a tranny.

Paying the extra money for the type-S engine new is likely just too much for the swap at this time.