There are many subway lines are under Tokyo and the best way to move quickly and efficiently.
I will make your original itinerary based on your request and take around you many places in Tokyo!!
9:00 Hotel in Shinjyuku
9:30 Meiji-Jingu Shrine
10:30 Harajyuku Takeshita street & Omotesando
12:00 Tokyo tower and lunch
16:30 Tokyo skytree
19:00 Akihabara or Ginza
21:00 Hotel in Shinjyuku