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So I'm re-reading the ASOIAF and I was reading GoT's when I noticed something I didn't pick up on before. Daenerys was conceived near the time of Robert's Rebellion/Battle of the Trident. I can't remember any canon expressing doubt, but around this time it would seem that perhaps Aerys might have been otherwise preoccupied to actual do the deed with Rhaella.

Do we have any reason to believe that Daenerys father is anyone except Aerys Targaryen II? Is there any reason for us to doubt that she is his?

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As far as I remember, noone ever doubts that. All of the children of the Mad King where legitimate children. That's why Rhaegar was supposed to be the next king.

Also that is the reason why Robert sent assassins to kill Viserys and Daenerys from the moment they escaped to Essos; because he was afraid they might come back to Westeros. Since they have the right claim to the throne, Robert was afraid they might find some supporters and rebel against him.

That is also the reason why Robert had many spies on Daenerys

like Jorah.

No, I don't think we have any reason to doubt that Daenerys is the rightful queen to the Iron Throne. The Mad King might have been mad, but he wanted his family to keep the throne. Thus, he must have wanted to have children.

From A Feast for Crows , we know that when Aerys became more and more insane, he started to abuse/rape his wife.

(A Feast for Crows, Chapter 16, Jaime)

In later years, as Aerys's insanity began to set in, he grew sexually abusive toward Rhaella. He developed a sexual fetish for fire and death, only sleeping with Rhaella after he had executed someone by burning. The final time, just before the queen was sent to Dragonstone to escape the coming siege of King's Landing by rebels during the Robert's Rebellion, Ser Jaime Lannister of the Kingsguard recalls listening to Rhaella cry as the king raped her; when Jaime protested that the Kingsguard were sworn to defend the queen as well, Ser Jon Darry replied, "We are, but not from him". In the morning, the queen's maids reported seeing scratches, bruises and bite marks all over her body

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Thanks. I guess I should rephrase, is there any reason for us to doubt that she is his? – Nicholas Jun 12 '14 at 19:38
I agree that he may have wanted children, but towards the end he seemed pretty preoccupied in his madness. I didn't know if there was a case for Rhaella to have sought comfort in another, or perhaps she was raped. – Nicholas Jun 12 '14 at 19:51
@Nicholas I added a quote from the 4th book/wikia – Shevliaskovic Jun 12 '14 at 19:54
That's good enough for me. Thank you for putting up with my incessant digging. – Nicholas Jun 12 '14 at 19:55
@Nicholas - Aerys has been known to take Rhaella against her will before. – System Down Jun 12 '14 at 20:46

I agree that the timing of her conception may be a little murky, but given that she displays every attribute of the Targaryen bloodline, there is very little reason to think she is only half-Targaryen (which would be the case were she fathered by another).

She is strong of spirit, heart, & mind. She is graceful & beautiful. She has silverish-white hair. And, lastly, she has a bond for dragonkind and shows immunity to fire.

All of these are legendary attributes of the Targaryen line. IIRC it's only a few recent generations that showed madness due to inbreeding - the rest of the line could almost be described as the perfect humans, and Dany certainly fits that bill.

In-universe, I haven't read anything that lead me to believe someone doubts her bloodline. I think as far as anyone is concerned, she is definitely the last Targaryen.

Of course, whether or not she is truly the LAST Targaryen is still up for debate at this point. But she definitely IS a Targaryen.

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I'm also assuming that gestation in their universe is the same as ours. The book said "I was born 9 moons after the flight to dragonstone", which IMO means 9 months after the sacking of Kings Landing. – Nicholas Jun 12 '14 at 20:10
Yep - it's probably safe to assume that her conception was the result of the incident Jaime referred to. If that's the case, the queen wouldn't have even known she was pregnant until well after King's Landing fell to the rebels. – Omegacron Jun 12 '14 at 20:13
And by no means forget the Targaryen violet eyes. – WhatRoughBeast Jul 15 '15 at 18:39

The entire plot of the books relies on the idea that Cersei's children all having blonde hair is enough to cast suspicion on their paternity. Bearing in mind that the Baratheon characteristic of black hair is far commoner than the Targaryens' unique phenotype, anyone possessing those traits ought to be a "full-blooded" Targaryen from both sides. From a meta POV, that is.

Now, I can agree that the circumstances of her birth seem tailored for this type of plot twist -- in their own merit. The rape followed by the Queen's immediate departure, plus the devotion of the man who would eventually raise Daenerys, would, in a different story, be a perfect setup for a successfully concealed affair. Certainly I as a reader would consider an affair to make more sense -- if you don't count the bloodline's special characteristics.

As it is, I would say casting doubt on Daenerys' paternity would look less plausible than the alternative, from both an in-universe and a meta perspective.

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The dragon has three heads (Daenerys, Jon Snow and Tyrion Lannister). All three children caused their mothers immediate death after giving birth to them (R + L = J assumed), at least two of the three are bastards (again R + L = J assumed as well as the theory that Tyrion's actual father is Aerys II and not Tywin Lannister which I thoroughly believe). Thus I am inclined to believe the Mad King may not in fact be Daenerys' real sire.

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Do you have any evidence to support this? It seems highly speculative. – bon Nov 3 '15 at 16:59

Targaryens have been lacking the capacity to breed dragons for generations. Now Daenerys has that capacity. Why ? Is there any blood coming to her by her father, who would not be Aerys ?

GRRM is known to have good knowledge about genetics and to use it in his novels.

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