When you go to the PC after beating the gym, zarel is there and will invite you to his house. You go to his house but find it abandoned, and a note on the table: " Whoever reads this, my house is being broken into and…" there's a little blood on the note after that (could be ink if we don't want it to be bloody) and it appears as if the rest was torn and taken. The gym leader comes in and says that he came for zarel cos there was prolly some error in the PC system and a couple more things. You explain to him everything, and after some thinking, he asks you to come with him. He takes you to a large building and then says, "It was I, Skygan, who was the chief of this place before this building was here. It used to be a village earlier, small and peaceful and everyone lived like a family. Then this company came and talked of transforming the place for the better. Reluctantly, I gave in. Recently, the people of this company have been acting strangely. They rarely open now, and even the employees stay inside. I don't like it [player name], and I think it's time we found out what's going on". You go for the door, but it's locked. Skygan calls out one of his pokes and it opens the door with its psychic powers. Inside is a large hall, and there are 2 stairs-obv one leading up and one leading down. Skygan points out that the basement used to be locked earlier, and suggests you go look up and he'll go down. You exchange pokegear nos. or w/e, and depart. Note that there isn't any lift in the building. This is a 4-5 floor building, and every floor has 3 grunts, and the top floor has 2 grunts+leader/admin. Once in, you can't go out, though there's a bed(or an NPC) on the 3rd floor where you can heal your pokes. Every floor shall have a grunt that can be avoided(except on top floor), though it is actually false happiness, cos you've to beat all the grunts on each floor to get a key. 2 keys are for a room on the 4th floor, while 1 is for a room in basement. You beat the grunts, go to top floor, beat more grunts, reach the leader/admin.
L/A: "Aha, so you're the little prick who likes to play hero and get in our way. Well it's not entirely your fault. Everyone wants to be looked up to, even I do, and my actions are driven by a sincere motivation to better this place. That smogon may call every ban it makes as an attempt to make the battles more fair, but actually they just ban things they can't handle. And they can't handle it cos they're weak.And then they go about how there are some pokes who can't ever be used here cos they are outclassed by others. I can't stand this stupidity, so I'll release all the mons: banned or deemed useless, and let them free in the smogsmog region. Will you join our noble cause?" well ofc we will we deny the offer, and he keeps blabbering "Ok, you had your chance. I was kind to you even though you had troubled us a lot, but you won't get any more chances. Noble as I am, I can't let anyone stand in the way of TLS, you shall be destroyed, and I shall do it myself". Badabooom…..and you fight and you win(if you lose, you'll have to re-battle the last 2 grunts before re-challenging the leader/admin) and he goes on "…how…how can it be…I can't lose. No, it was just pure luck and matchup which got you the win, TLS can't be wrong, it can't be defeated". Talks on cell, after which he speaks to player again "Our job here was almost done, but the progress is nonetheless impressive, we'll leave cos we don't have anything to do here anymore, but I'm warning you, don't try to stop us, you'll be crushed" and he escapes on another dumb thing like fly golurk.
Zarel tells you why he was kidnapped "They have formed links in the ubers region, and wanted to bring many uber pokes here, but ofc they can't bring them manually due to the smogsmog guards. So, they wanted me to link their PCs to those in Ubers region, and bypass the security check. Ofc I refused, so they tried to steal the codes of the PC system so that they could break into the system themselves, but you stopped them before they could leave. Thank you [player name], you really saved this region from a big disaster. I can't thank you enough." You call Skygan and explain anything, and meet him outside. Skygan tells you that in the basement, they were working on breaking into the security system, and also tried to allow the use of unreleased abilities on pokes(like contrary serperior earlier, and flash fire entei). He stopped them, though he doesn't know how much damage was done. Zarel rushes off to his house to make sure everything is fine, and Skygan takes you to the Poke Center to heal your poke. He then thanks you again for your help.
After leaving the Centre, you get a call from Zarel, asking you to come to his house. When you go there, he thanks you again, and decides to give you 2 interesting Pokemon: Rotom and Melloeta(or Mew). He also states that while Rotom can take lots of forms, not all of them are viable.
----------------------------------------------End Story
Now remember we had 1 key for the basement? Well actually i haven't actually thought of what could be hidden there, so it's open speculation for the time being.