You can put plants in your secret bases in emerald
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In your secret base.
If you put Soothe Bell on a Pokemon or give it Pokeblocks.
After you get 10 emerald fragments you can combine it in the pokemon lab and then you put it on your first pokemon in your party and u can catch zapados (I don't know where zapados is)
Yes you can you put on the bottom slot
its not an emerald its RAYQUAZA the main legendary Pokemon in Pokemon emerald.