Question 1

Where is Yahiko Shrine?

Accepted Answer

Yahiko Shrine is in Yahiko, Niigata, Japan. You can see its exact position from the map coordinates and the Street View link.

Question 2

Which scene of My Deer Friend Nokotan does Yahiko Shrine appear in?

Accepted Answer

Yahiko Shrine is a real place that appears in My Deer Friend Nokotan.

Question 3

Can I visit Yahiko Shrine?

Accepted Answer

Yes. Yahiko Shrine is a real place you can visit. Check what it looks like on Street View before you go.

Question 4

Where was My Deer Friend Nokotan filmed?

Accepted Answer

Anime and manga are not filmed the way live action is. Their backgrounds are painted from photographs of real locations, and Yahiko Shrine is one of those real places.