AU Takes things from the movies, but should not be expected to be like any of the movies fully. Events of X1 & X2 did occur with some slight changes that will be addressed. X3 did not happen. DISCLAIMER I own nothing, none of the characters places anything.
Mutants are being freed after years of a secret group of antimutant radicals had been holding them captive. It was supposed to be a "mutant prison" much like the idea in DoFP. They claimed to only take mutant criminals, and contain them. They were shown as a high tech safe alternative for mutants and humans. However, they were taking every mutant they could without drawing attention to it.

ROGUE'S P.O.V.

"You'll be okay, " a quiet calming voice came from next to me. I turned towards the voice to see a surprisingly beautiful woman. She sat up and smiled at me. "What's your name?"
"Rogue," I managed to cough out. Just to speak hurt. I wasn't sure where I was and I had been screaming for quite some time. I just wanted to go home.
"Hey, I understand, and I'm not going to lie to you. This is not a place you want to be but I've got you. You're not alone. My name's Carol. Come sit with me sweetie."
I looked her up and down, she had a collar around her neck and each wrist. I was suddenly very aware that I also did. I began to panic even more.
"I just want to go home," I sobbed out as I began to pull at the collar. I was met with an overwhelming shock. I fell to my knees in pain. Before I could stop her Carol had rushed to my side and grabbed me. "No! Don't touch me!" I screamed and began trying to pull away.
"Wow,wow, wait, I promise I won't hurt you!"
"I'll hurt you! You can't touch me! I don't want to hurt you! Please!"
Carol looked at me confused, then a sad smile danced across her face, " Your powers keep you from touching?" I nodded in response, begining to calm down now that I was away from her and the pain had subsided. She pointed to the collar around her neck, " This stops that. I haven't figured out how, or even how to break it or get it off. Do you remember how you got here?"
I took a deep breath, "I had left home, I was just walking down the street..I- I don't remember anything else. Nothing but waking up and not being able to see. I started screaming, trying to get my gloves off, but-" I looked down, my gloves were gone, my clothes were gone. I was in some kind of uniform. I looked at Carol to see she was in the same one. The sad smile still on her face.
"Yeah, I woke up to the same thing. It's all confusing. I wish I could give you the answers,but all I can do is be here for you. Now, Rogue, is it? I will be honest, this place is scary. They take us, they test on us. We're nothing more than animals here. I'm not saying this to scare you, sweetie, I'm trying to prepare you. Do not fight. I know you're going to want to, but that will make it worse. Trust me, I tried. Took me a long time to learn that lesson."
"Wait, how long have you been here?"
"Longer than I can keep up with. I know it's been a few months at the least."
We sat in silence for a moment. Finally, I looked around to see there were others all around us in cells like ours. "Is this a prison?"
"I think so. I think this is THE prison. You know? The one that was supposed to be so safe? The one that was where mutants or others with powers were supposed to go when they broke laws. I knew it sounded too good to be true when they announced it." Carol looked broken. She stood and walked back to the cot she was on when she had first spoke to me. She was taller than me, lean and in good shape. Her long blonde hair looked unkempt. I'm sure in a better situation Carol was easily the most beautiful woman in a room. I stood up, wiping my hands on my legs and took in the ugly outfit I was in. It was a khaki color jumpsuit. I definitly looked like a prisoner.

Over the next few weeks Carol and I grew close. She wasn't lying about being animals to these people. We never saw their faces, they made sure of that. Lights would go out, and when they came back on someone would be gone. They would go out again and the person would be back. Sometimes the lights didn't go out again. Sometimes people didn't come back. The first time they took Carol I cried. I felt weak and alone. I wasn't even able to fight. After they brought her back we hugged and didn't let go for what felt like ages. In the most messed up events of my life, I had found a wonderful friend. We all became friends, no matter our beliefs. I found myself speaking to people I had fought against. I found myself, although terrified, trying to calm and reassure the other mutants around me, much like Carol had done for me when I first came.
The first time they took me for tests, against Carol's advice, I tried to fight. I was met with abuse. I was stunned and beat until I could no longer fight, then cuffed to an examination table. They took blood, saliva, brought in who they called a doctor to do a physical. When I was back in my cell Carol held me as I cried myself to sleep. After that I became a favorite. I learned quickly not to fight, just as Carol had tried to warn me. They began to experiment using my mutation. That was the worst. I would come back with flashes of memories of other people. The day I had a memory of myself was the day I broke. I had never seen who I was draining. They kept me from that. This time there was no avoiding it though. The person I had touched was my friend. That meant they had her. They had Jubilee.
She was in the cell next to Carol and me. Roomed with a pretty girl called Paint. Jubilee informed me that everyone at the school thought I had just left for the cure, including Logan. That is the day I realized, no one was looking for me because no one knew to look for me.