JMSDF will obviously have the edge in terms of training, preparedness and experience however those things are subjective and difficult to gauge.
Training will be more or less equal. China is no longer the poor backwater that it was in the past, they can now afford to train personnel to a degree that rivals the best in the world.
Preparedness is such a vague concept, I don't even know how you can definitively say one country is more prepared to fight than another. Both the PLAN and JMSDF are navies of functioning nations; their chain of command is intact and discipline is high. Both are ready to fight at a moment's notice should they be ordered to.
I'm not sure I understand what 'experience' you're talking about. Experience in operating a carrier or experience in operating modern vessels? If you're talking about the carrier; Japan doesn't even have a carrier, PLAN wins without dispute in this regard. If you're talking about operating modern vessels, then so far, the JMSDF has the edge. The PLAN has only just begun to introduce modern vessels into their fleet on a large scale. Their doctrine for the operation of these vessels might be outdated in light of the improvement in capabilities that the newer vessels possess. However, China is known for being quick to adapt to basically anything, its economic and scientific development should be an obvious testament to that. The experience advantage that JMSDF has in operating modern vessels will quickly be mitigated in the near future as more and more PLAN sailors serve on-board these newer vessels.