There were a number of Japanese subs that did have airplanes in on-deck hangers that were part of the conning towers. The JyunsenB was probably the most "common", but the the Type A1, Type AM, and Sen Toku (I-400 Class) were the ones I can remember off the top of my head. One, two or three planes each, and it seems to me that the Sen Toku had parts onboard that could be used to build a 4th Seiran plane. The Type 1 did not do planes, but they did "piggyback" the Ko Hyoteki midget submarines on their decks...
It does look like something is incorrect in the bow and keel areas. Is that a WoWs damage model showing? The torpedo doors do look misplaced also, and look to be open.
keltos01 did models for SH4, and he is rather helpful if you are looking to convert his to SH3.
Jyunsen B mod
Includes other subs in it... but I cannot find some of his other mods with more submarines in them...