I just want to say, so many people have written things here and really "hit the nail on the head" :p Im glad to see posts that arent arguing against religion (as it seems, many people do!)
I am a Christian, and I have wrestled with my own faith with transitioning over the years, but the way I see it, is God didnt make a mistake. He hasnt made me the way I would have chosen, but we all see things from a human perspective, God does things for a reason and there is a plan for everyone. I think that going through something so strenuous for your soul as transition is, helps you to grow closer to God (as someonen who believes in Him anyway...) during struggles.
I had to leave a Church at 16 because one woman who offered to counsel me about this issue, we just did NOT see eye to eye. But this lead me to another Church, and the Pastor there (R.I.P) was great. He knew I was trans (cos my Mum explained to him...) and he said one thing I wont forget. He said that God will use me to help others in ways noone else can. Others going through anything similar or just as hard, they arent going to want help or advice from someone who has had it easy, their wrds may just seem prescriptive but with no emotional understanding. As he said, a person may think "Im going through hell, I dont want to hear from you unless you have been there and back!"
Well, to me those were great words, but that may just be me :p
At the end of the day, God is judge, no person on Earth is so I dont see how they can tell us what is in our heart and mind, is wrong.