As no one else has replied, I'll do so.

if you have applied and obtained a visa for Japan and you have a ticket and valid travel documents for an onward journey that departs before your evisa or Japan entry expires, then it seems to me that you should be ok.

What was the doubt that caused you to pose this question?

Have you tried using the IATA TIMATIC database to check your planned travel? (TIMATIC is the database that check in agents use to assess your admissibility for immigration and health)