In the Alternate History Edo Japan of Ooku: the Inner Chambers, Shogun Iemitsu raped a passing commoner girl one night just to prove he could bed a woman if he wanted to. Since his other bed partners were all teenage boys, when he died of the Red-Faced Pox a decade later his illegitimate daughter became the only hope for keeping the Tokugawa direct line in power and avoiding a Succession Crisis civil war that would drive the country to collapse. Iemitsu's death was hidden and his daughter secretly imprisoned in Edo Castle to produce a male heir. In a second instance of this trope, she was raped and impregnated by a castle guard. Her daughter died in infancy.
In Blood+Diva's children since their mother, the Big Bad, rapes and then murders their "father" Riku, Kai and Saya's little brother.
Vampire Hunter D is the result of a cruel game Dracula played with a mortal woman: he would rape her, impregnate her, and kill the resulting child, promising she could keep the next one. After multiple cycles of this, Dracula kept that promise, and D was born. Knowing this it's not surprising that D grew up and dedicated his life to killing vampires.
In the 2003 anime version of Fullmetal Alchemist, Ed and Al's friend Rosé has a child by the second time they meet her. It's never stated outright, but it is very heavily implied that she was raped by at least two Amestrian soldiers.
Implied in regards to Yoshino and Kariya in a Bleachfiller arc. She's the only Bount who can actually reproduce, according to him... and then he uses her to create new Dolls without her consent and kills her immediately afterwards.
In Elfen Lied, the ultimate plan of the Big Bad Chief Kakuzawa is unveiled when he introduces Lucy to her own half-brother, a Male Diclonius, Primary like herself, the result of his rape of Lucy's mother, taken captive after Lucy herself was. He wishes them to mate. Lucy's reaction is not at all surprising.
Rosine, the Big Bad of the Lost Children Arc, is heavily implied to be the result of her mother's rape when her village was raided. This has stemmed a buttload of emotional and physical abuse coming from her father, making her a much more sympathetic villain.
In a zigzagged variant, Guts and Casca'schild became what it is due to Femto having contaminated it with his demonic seed when he raped her during the Eclipse.
In Baki the Grappler, Yujiro Hanma does this to Jane, after revealing that he knew about her hidden agenda all along, resulting in Jack Xamma.
Words Worth: All evidence strongly suggests that Maria's daughter, Miyu, was the result of having been raped by Astral 20 years prior. Miyu's age (18) places her around the time she would have been conceived, plus, Maria is unwed and isn't said to have been with anyone else since the incident with Astral. Further, he and Maria are believed to be the biological offspring of Pollux and his wife, also named Maria. Meaning, Maria was raped by her biological brothernote without either of them knowing they were related by blood and gave birth to their daughter/niece.
Raven from Teen Titans, with the specifics depending on the version. The very first origin (written before Marv Wolfman and George Perez got their act together), Trigon took Arella as his bride while using a human guise, and didn't reveal himself until much later, making her a child of rape by fraud. The second origin, which is generally considered to be the canon (by this point, Wolfman and Perez had long settled down in their thing), Trigon brutally raped Arella. In the latest origin (written by Geoff John), it used the fraud explanation.
Wallflower from the New Mutants was conceived when her father used his pheromone powers (which Laurie would inherit) to seduce her mother.
Purple Man fell for a girl and used his powers to seduce and marry her. Purple Girl was their daughter.
In The Sandman, Rose Walker's mother was conceived when Desire raped her comatose mother, Unity Kincaid. This wasn't because of any sexual interest in Unity, but simply because Desire needed to have a child with her for The Plan it was trying to pull against its brother Dream. Unity remained in her coma throughout the duration of the pregnancy and birth, and for a long time afterward thought she had dreamed the entire thing.
In Green Arrow the villain Shado raped Oliver Queen after she shot him with an arrow and while he was delirious with fever from a medication, and reveals later that she had a son, Robert, as the result of the rape. Robert seems to be perfectly normal and not know the circumstances of his birth, but the Unfortunate Implications of the story come out when several later stories (especially those written by Judd Winick) treat the rape like Ollie consensually cheated on his longtime girlfriend and later (ex)wife Black Canary, which has lots of problems.
Damian Wayne was conceived when Talia al Ghul drugged Batman and raped him explicitly to conceive an heir for his greatest enemy, Ra's al Ghul. She didn't tell him about the baby's existence for ten years, after which she dumped the kid on Batman's lap. No wonder he and Damian have issues. Exactly how consensual the sex was depends on the current state ofRetcon.
Subverted in Watchmen. After the photo shoot for the 1940s Minutemen, The Comedian attempts to rape Silk Spectre before being interrupted by Hooded Justice. They later have a consensual relationship resulting in a daughter, Laurie (aka Silk Spectre II).
Something similar to the Green Arrow example happens to Jack Knight when he is drugged and repeatedly raped by his enemy, The Mist, with her intention being to raise the resulting child to hate and ultimately kill Jack. Fortunately, by the last issue, it ends MUCH happier for both father and son.
Tom Strong was raped by Ingrid Weiss and fathered a son Albrecht whom she raised to be a Nazi like herself. Tom only learned all of this when Ingrid showed up with their fully indoctrinated Nazi son. It's also implied that an alien queen seduced him in the past using pheromones meaning the present-day queen is his daughter since Tom and the present-day queen have the same hair color.
The title character of Nikolai Dante was conceived when Katarina was raped by Dmitri Romanov, and she almost killed him soon after birth. This rape is about the only thing that ever managed to really harm Katarina.
The comic Smax reveals the Jeff Smax and his twin sister Rexa were conceived when their warrior mother was raped by an ogre. A very large ogre, making this a very dark example of Hot Skitty-on-Wailord Action. It was mentioned that she was unusually strong, to the point that not only she survived the rape, and then the pregnancy, but possibly could even have survived the birth if they had not been twins.
In Avatar the Last Airbender: The Search, Ursa was forced to marry Ozai under threat of her parents, her and her lover being killed, and went on to have Zuko and Azula, who can be considered G-rated versions of this trope since the rape part is only implied by context.
The Pony POV Series has an interesting spin on this. Fluttercruel, a separate entity now sharing Fluttershy's body, was born from Discord's Mind Rape of Fluttershy. While it wasn't physical rape, Discord's Mind Rape is treated with a somewhat sexual context in the story, Fluttercruel comes off as this. Though she doesn't seem to have any problem with it, nor does Fluttershy, who considers Fluttercruel her daughter.
Same goes for Dark World!Fluttercruel, who, due to who she is, is actually happy she was conceived this way, as it means Discord didn't fall in love with anyone. It's finally played dead straight when Rarity and the others learn of Fluttercruel's existence. Rarity's reaction is understandable.
There is, apparently, a Simpsons Crack Fic out there that states that Maggie was conceived when Bart raped Lisa.
Laneen in Hivefled is possibly the child of Her Imperious Condescension and the unwilling Psiioniic. It's not confirmable because trolls don't use DNA tests, she doesn't bear either of their sigils, and all that's left of her now is a bloodstain on the wall. It's also quite possible some of the main troll gang are the products of something similar, since this is a non-ectoclone AU, with one confirmed example being Karkat, who's the result of The Grand Highblood and the troll Empress raping The Signless.
The infamous Shinra High SOLDIER by Sephirothslave has Jenova taking control of Sephiroth's body and raping his fiancee Julia during the Wutai war. This resulted in the birth of a baby boy, Orion.
Joseph Regent, the protagonist of Son Of The Warp, is this, given that his mother was legally insane when she was impregnated by Tzeentch. Of course, Tzeentch is an Eldritch Abomination, and Joseph is too busy being terrified of his father to apply any sort of morality to him.
In one classic The Mighty Thor work, Loki manipulates a teenage girl with apparent mutant powers by convincing her that she was in fact sired by Thor during a rape. It turns out that he was telling the truth, but never let on that Thor was the one being raped (by the telepath Moondragon, who gave birth during her subsequent imprisonment in Asgard).
In the Pretty Cure fan fic, Twilight Pretty Cure, MarinaAsagi was born from her mother being raped by a notorious criminal. Thankfully, her mother went to great lengths to raise her all by herself and loves her very much. However, Marina does get bullied at school because her classmates assume that because she's the daughter of a criminal, she'll grow up to be just like him no matter what, and they don't listen even as Marina tries to convince them otherwise.
Freddy Krueger's mother was a nun, raped by a hundred inmates of an insane asylum. This gave him the nickname "bastard son of 100 maniacs".
The deformed killer in Humongous is a result of his mother being raped during a Labor Day cocktail party..
A girl is raped by Bigfoot in Night of the Demon (1980) and later gives birth to its offspring.
A plot point in Phenomena; an offhand mention of a nurse being attacked by a mental patient in the past resulted in the film's deformed killer.
The mutants in the sequel to the remake of The Hills Have Eyes catch women for this very purpose.
The main character was conceived by this way in The Beast Within. As an adult, he starts developing his father's... traits.
The hero in Grave Of The Vampire is an example.
In Dagon, everyone is a child of Dagon, whether the mother wants it or not.
In The Prey, the Final Girl is captured by the killer and the film ends with her giving birth to his child.
The title character of the Rika series is half-American, half-Japanese; her mother was raped by soldiers on leave from the Korean War.
Two of the cast of House of the Wolf Man come to the realization that every invited member in the house is related to each other, as their mothers were all raped by the same assailant in the past, with them as the result. Except for the Chapel twins, who were adopted.
In Cherry Falls, where the killer reveals he was born from the Sheriff and his friends drunkenly raping Loralee Sherman several years ago.
Katherine from the film Chinatown, who is revealed to be the sister and the daughter of Mrs. Mulwray. Noah Cross takes on the status of a true monster immediately following this reveal.
The Clash of the Titans remake has Perseus being conceived by a Bed Trick as punishment for daring to challenge the gods. Zeus disguises himself as King Acrisius and sleeps with his queen, who gives birth almost immediately. Acrisius still has it in for Perseus, even though it wasn't his fault.
American Me: It eventually is revealed that main character Santana was conceived when his mother was raped by a sailor during the 1943 Zoot Suit Riots, in which US sailors on leave clashed with Hispanic residents of Los Angeles.
Rob Roy: Quite possibly the case with Mary's baby, although she can't say for sure whether Rob or her rapist is the father.
In Dragonlance, Tanis Half-Elven's elven mother was raped by a human and gave birth to Tanis, who was raised by his mother's people. Both the circumstances of his conception and his biracial status make Tanis uncomfortable. For bonus angst points, he's told that his mother clung to life in the hope that her unborn baby was sired by her dead husband, and upon giving birth and discovering otherwise...
In the first part of Stephen R. Donaldson's Thomas Covenant the Unbeliever Chronicles the titular character rapes and impregnates one of the first people he meets in the Land.
In Deep Love after Reina is raped she gets pregnant and has a child whom she names Ayu.
In Le Morte Darthur, Sir Tor is the child of the rape of a cowherd's wife by a knight.
Arthur could be considered this as well, since he was conceived under false pretenses; his father (Uther) magically disguised himself as his mother's real husband (Gorlois), who was being killed by Uther's men at the time, the sorcerous equivalent of a Bed Trick. Ygraine does marry Uther, and according to all sources that comment they were very happy, but she sure wasn't pleased when she worked out what had just happened.
For that matter Sir Galahad is usually said to have been conceived when Lancelot had been enchanted into believing that Elaine was actually Guenievere, whom he was in love with. The "tainted" aspect sure doesn't apply, since he turns out to be Incorruptible Pure Pureness and the one knight worthy of gaining the Holy Grail.
In The King's Peace by Jo Walton, the protagonist falls victim to the first part of a Rape, Pillage, and Burn raid, resulting in a son with an important Destiny (it is explicitly acknowledged that the god responsible for this destiny is not very nice, and enjoys messing with people.)
Author V. C. Andrews tends to use this trope a lot, and often as backstory.
In the Night Huntress series, Cat's mother Justina was raped by a vampire, resulting in Cat's conception. Avenging her mother's rape and atoning for her own existence is Cat's primary motivation for killing all vampires in the first book. Later we learn that Cat's father mind raped Justina only after the physical seduction had been completed, violating her mind and causing her to believe she'd had sex with a demon, hence she claimed to have been raped. Your mileage may vary on whether that's better or worse.
In the Harry Potter series, Voldemort is conceived this way. Voldemort's mother, Merope, forced a guy she was infatuated with to marry her using a Love Potion. He left her and their unborn child when he was freed from the potion's effects. Word of God states that Voldemort's lack of empathy for anything is because he was conceived without true emotion, but only manufactured emotion, but Word of God also states that had Merope raised Tom herself with love he would probably have turned out differently.
In Christopher Moore's Fool, Pocket was assumed to be the child of a nearby town's resident crazy lady, who claimed he was a prince before dropping him off at a convent and drowning herself. A witch later grants Pocket the ability to see what really happened: Nine months before he was born King Lear essentially forced his own brother to rape Pocket's mother.
A couple times in the Sword of Truth series. First we learn of Richard, whose father turns out to have been the Big Bad. The next book has Du Chaillu, who was kept as a slave and raped repeatedly, and has become pregnant. Richard convinces her not to abort the child.
Usually the case with Confessors, as the nature of their power means they try to avoid falling in love and having sex with men they love, as they can't avoid Confessing them in the throes of passion, essentially turning them into And I Must Scream slaves. As such, they usually confess "bad" men and use them to father and protect their children. However, as in the case of Kahlen and Dennee Amnell, their mother died when they were little, which caused their father to instantly die as well.
This is Saavik's backstory in the novelization of Star Trek II: The Wrath of Khan; she's one of several children produced by Romulans raping captured Vulcans. She mentions that she doesn't even know if the rapist was her mother or her father.
This is also a backstory of Soleta, a character prominent in Star Trek novels. Her story is particularly tragic: her mother desperately wanted a child with her husband, but all of her pregnancies ended prematurely. Then she was raped by a rogue Romulan, became pregnant, and decided to have the child (as a gift of fate). And indeed, Soleta was the only child she managed to give birth to.
Clovis Holstein in the Warrior Trilogy of Battletech novels learned early on in his life that he was the Child by Rape of Duke Aldo Le Strade. When Le Strade's actions lead directly to the near-annihilation of his entire town, Clovis demands of his allies that no one but he kills Le Strade.
Starling from Farseer trilogy was raped by an Outislander invader, but aborted the child, which unfortunately left her infertile.
Tillu from Megan Lindholm's The Reindeer People was captured and abused by four men, after which she gave birth to Kerlew.
Need by Carrie Jones has a character outright using this phrase, though whether it's "really" rape is a matter of a brief debate. The woman consented...because she was under heavy threats to herself and her family. And then the disaster that this was supposed to avoid happened anyway. The child is Zara herself.
At least some of the half-human half-Fae characters in The Dresden Files are the children of rape. One of them was the product of a human woman raped by a troll. In one short story, we're introduced to a Grendelkin, who can only reproduce this way, with the offspring clawing its way out of the poor "mother".
Elena Bothari-Jessik from the Vorkosigan Saga only learned she was the product of a rape when she finally met her mother... who promptly shot her father. A very rare case where the perpetrator is actually a sympathetic character, who carried out the rape whilst his anti-psychotic medication was being forcibly withheld by a third party and was wracked with guilt when he was lucid again.
The title character of Stephen King's Carrie may have been the result of marital rape, as revealed by her religious fanatic mother Margaret directly before her attempt to kill her. Carrie's mother and father, being extremely, puritanically religious, strongly disliked and were repulsed by sex; however Margaret implies that they couldn't resist no matter what and that her father raped her one night when he was drunk, which made Margaret even more ashamed when she enjoyed it. Margaret then thought that she had "a cancer of the womanly parts" until a doctor told her she was pregnant.
Bruce Robertson, the brutal misanthropic policeman in the Irvine Welsh novel Filth (1998), is revealed to have been conceived after his mother is raped by "The Beast".
Quite common in the Malazan Book of the Fallen as rape can double as a form of greeting in some cultures. One child, after being told he was a child of rape, at first misunderstood this to mean that was his father's name. Perhaps the most disturbing of such cases are the Children of the Dead Seed in the third book, Memories of Ice. The mothers were willing, the fathers were already dead...
Ramsay Bolton is an interesting examination of the trope, since it's pretty clear that the reason Ramsay is so awful has less to do with being conceived in a "tainted" situation and more to do with being related to/raised by someone horrible enough to go around raping people in the first place.
Also, Daenerys Stormborn is probably this. According to Jaime Lannister's recollections, her parents' sex life had devolved to the point that it only happened when her insane father got horny after a burning and violently abused the Marital Rape License.
Lollys Stokeworth's son was conceived when she was gang-raped during the Riot of Kings' Landing, and her husband Bronn decides to name the child after his boss Tyrion (whether or not this was intended as a slight to Tyrion is left ambiguous, though Bronn apparently wanted to name the child Tywin after Tyrion's father until Cersei vetoed it with extreme prejudice).
Gilly's son is almost definitely this, considering the father is also herfather.
In Their Eyes Were Watching God, Janie was conceived when her mother was raped by her schoolteacher. The mother arguably counted as an example herself, her father apparently being the plantation owner who used to own Nanny.
Ushahin Dreamspinner from The Sundering is the result of the rape of an Ellyl woman by a human man. He is eventually rejected by both peoples and beaten to within an inch of his life, after which he is adopted by the leader of the wolf-like Were.
In Son Of A Witch by Gregory Maguire, Liir, the protagonist is raped by a young Quadling girl when he is comatose. Their daughter Rain is a child by rape. At the end of the book the mother abandons their green skinned daughter for Liir to find.
And in Wicked, the first book of the Wicked Years series, it's strongly implied (confirmed via the family tree in the third book) that Elphaba herself was this. She was conceived after the Wizard had her mother, Melena, drink the Miracle Elixir, and then had sex with her while she was unconscious.
Queen Yrsa, mother of the title hero of The Saga of Hrolf Kraki, was conceived when her mother Queen Olof of Saxony was raped by King Helgi of Denmark.
In Handle with Care by Jodi Picoult, Charlotte's lawyer, Marin, is adopted and finds out that her birth mother gave her up because she was a child by rape. Marin's birth mother refuses to talk to her because she reminds her of the rape.
In Salem Falls by the same author, Addie's deceased daughter Chloe is revealed to be the result of a gang rape.
Trapped on Draconica: Gothon captured Kalak's mom and raped her before she escaped. Kalak himself is more shocked and outraged that his mother didn't abort him (as is the Leondian custom) than discovering that he's this trope.
This drives the entire plot of Francine Rivers’ novel The Atonement Child.
At the end of Last Snow by Eric Van Lustbader, Annika learns that she was conceived when her mother was raped by the man who had just killed her husband. She responds by putting a bullet in the head of her "father", especially since said father had tracked her down and kidnapped her as a child, and had tried to start a sexual relationship with her when she was only 5 years old, knowing full well who she was.
The Alienist: the killer was the result of marital rape.
Máel Dúin, hero of the medieval Irish romance The Voyage of Máel Dúin, owes his existence to his father Ailill Ochair Aghra raping a young prioress during a raiding expedition.
In Disgrace, Lucy Lurie conceives a child after being viciously gang-raped.
In Fort Hope, Emma is most likely one of these. Towards the end of the book, she ends up (briefly) meeting TJ, her biological father.
Member, the protagonist of Voices, was one of many children born when the Alds sacked Ansul and raped any woman they found. They have lighter skin and the Alds' characteristic blond, fuzzy hair to mark them out, and they're derisively known as "siege brats".
Little House on the Prairie: The 1981 episode "Sylvia," where Albert's girlfriend (the 14-year-old title character) is impregnated by a masked rapist (this is contrary to the vicious gossip Mrs. Olesen spreads about the girl, claiming that Albert had gotten her pregnant.) Later, as Caroline is counseling Albert on his declaration of love for Sylvia, she asks him what she might be thinking about becoming a mother and what she'll think about the child she is now forced to bear. The episode ends tragically, with Sylvia losing the baby in her final confrontation with the rapist; she suffers a critical injury after falling from a rickety ladder while trying to escape, causing her to miscarry, and she dies shortly afterward.
Detective Olivia Benson in Law & Order: Special Victims Unit was conceived by rape. There was a moment when it seemed like it was not the case, but then it was made clear that her father raped her mother and her mother was not lying about it.
Also, a good few cases deal with children conceived by rape.
One memorable episode featured a guy conceived through rape who started committing crimes similar to his father's. His lawyer used this as evidence for an Insanity Defense, arguing he became a rapist because of some inherited genetic defect.
Three examples from EastEnders: the character of Donna Ludlow, who turned out to be the daughter of Kathy Beale, conceived when Kathy was raped at the age of 14; Little Mo Mitchell, who was raped in the Queen Vic, fell pregnant and decided to keep the child; and Zoe Slater, the result of Kat being raped by her uncle as a teenager.
Scorpius from Farscape. A good deal of his loathing towards the Scarrans stems from what they did to him and his mother.
Interestingly, the Scarrans tried to convince him that it was the other way around (i.e. that a Peacekeeper male raped a Scarran female).
A Lifetime Movie of the Week called Sin And Redemption where the main character was raped and became pregnant. Her Holier Than Thou father kicks her out of the house and she moves in with her sister. The woman later marries a man she meets at her job. Turns out he's an abusive Jerk Ass. Worse still, her oldest child's kidneys have failed and needs a transplant. Hubby won't get tested. Why? Turns out he was his wife's rapist and the father of the sick child.
A woman in The X-Files episode "Aubrey" was raped by a serial killer, bore his child and put it up for adoption. Her grandchild ended up continuing her grandfather's work, to the letter.
In the Criminal Minds episode "Birthright", the team suspect a serial's killer's son is carrying on his legacy... only to discover there's also a second son, whose mother was raped by the killer. This avoided the second part of this trope in that the child by rape, while not a stellar human being (he's a bit of a bum), isn't evil because he's known for most of his life that his father was a bad man and loved his mother for caring for him despite it. The child by marriage however...
In another episode, this was the unsub's motivation, though he does not succeed (the only victim he impregnates is unwilling to have an abortion, but also unwilling to carry the child, and ultimately commits suicide.)
The killer in "Profiling 101" was conceived through his mother's rape, after which she died giving birth to him. The horrible abuse of his cruel grandmother who resented him being born, saying he was conceived in sin and that her daughter's "womb was cursed", then helped lead him into murdering women and cutting out their uteruses.
One example in Strong Medicine. A matching donor could not be found for a patient, until the patient's mother informs the clinic staff that the patient's father could be a match. The father was in prison for raping the mother.
On All My Children, Erica Kane's eldest daughter, Kendall Hart, was conceived by rape when Erica was molested by one of her father's friends, a matinee movie actor with a fetish for young girls, on her 14th birthday. The baby was given up for adoption to the Harts but they keep the adoption a secret from Kendall, who feels displaced growing up. When Kendall learns her birth mother is Erica Kane, she appears in Pine Valley as a 16-year old runaway and is immediately hired as Erica's personal assistant. Months later, Kendall's age is changed to 22/23 years old as a result of Soap Opera Rapid Aging Syndrome, promoting 15-year old Gellar's Kendall as Older than They Look. Though Erica initially welcomes Kendall into her life after discovering she is her daughter and both try to make it work as a family, a hurt Kendall becomes increasingly embittered by not receiving the full acceptance she seeks from Erica and is jealous of the attention lavished upon her younger half-sister, Bianca. When Erica implores Kendall to return to her adoptive home after almost a year of trying to be the mother Kendall dreamed of her to be, a devastated Kendall becomes bent on revenge. She and Erica experience a bitter, painful, and complicated relationship as Kendall plots against her, intent on exacting payback for being given away as an infant. However, Kendall and Erica make peace before her 1995 departure and Erica forgives an apologetic Kendall for the harm she has caused. The character returns in 2002, played by Alicia Minshew, as the same age she was when she left seven years prior. Kendall comes to develop a far healthier and more loving relationship with her mother and sister, Bianca. This story line is especially notable for launching the career of Sarah Michelle Gellar, the first actress to play Kendall, who won a Daytime Emmy for the role in 1995.
Chad Harris on Passions. Originally he knew his parents were from the town Harmony and eventually came to believe he was the son of wealthy white businessman Julian Crane and his black lounge singer-turned doctor Eve after he fathered a child with Eve's daughter Whitney. Later he turned out to have not committed incest with Whitney and that he was actually the son of Eve's deranged adopted sister Liz who was raped by Julian's father Alistair. Then we find out he really did have gay incest with Vincent, who turns out to be the actual son of Julian and Eve (thus Chad's half-nephew/cousin and Whitney's half brother. Vincent is also a cross-dressing intersex serial killer (no seriously this is all true) who has violently raped or tricked various of his relatives into sex including his uncle Chad, his sister Fancy and the topper is he becomes pregnant with his father Julian's baby. Yeah.
Christian Troy on Nip/Tuck. His mother was raped as a teenager and he was given up for adoption. His adoptive father is a pedophile who repeatedly molests Christian. Later Christian is sexually assaulted by a bisexual serial rapist. When he meets his mother after many years she refuses to see him again because he so closely physically resembles his biological father - her rapist.
Home and Away has a few examples, most notably Charlie's daughter Ruby (who was raised as Charlie's sister until she was 16), Ailsa's daughter Shauna (conceived when Ailsa was in prison and was raped by a guard), and Tasha's daughter Ella (from when she was drugged and raped by a member of the cult she'd joined).
In Neighbours, Declan Napier and Julie Robinson-Martin were both the result of rape. Izzy invoked this when she told Karl that the child he'd believed was his was really Gus's. He found out she was lying less than a day later.
One episode of Maury featured a woman who was convinced that her son was the product of a rape, since she'd been raped by a friend around the same time she'd had sex with her husband. As such she neglected the child in favor of her other children, and her husband, who was disturbed by how she was acting and decided he'd love his son even if he wasn't the biological father, dragged her in to get a DNA test to settle the matter once and for all. It turns out the boy was her husband's son.
American Horror Story: Asylum has John Morgan, also known as John Thredson, the modern day serial killer known as Bloody Face. Especially disturbing as his father was the original infamous Bloody Face and his mother was a lesbian who became one of his victims. When John discovered his true parentage, he decided to follow in his father's footsteps.
In Stargate SG-1 Daniel's wife Sha're, while host to Apophis' queen Amaunet, is impregnated by Apophis' host - the child was conceived with the intention of becoming a new host for Apophis.
Hell on Wheels: Elam was conceived by his master raping Elam's mother. Another freedman says Elam shouldn't consider their former master his father, and he appears to agree.
In Legend of the Seeker, as in its source materials all children of Confessors are conceived this way, as their mates have lost all free will and do as the Confessor wishes. Kahlan's father came back to his senses after her mother died, taking his understandable fear of Confessors on realizing what had occurred out on his daughters, by binding their wrists to prevent them touching him-and thus becoming Confessed once again.
Many a demigod has been conceived by a god disguising him- or herself as the victim's spouse.
Zeus has to be the master of this one, often not bothering with the "spouse" part, and occasionally not even disguising himself as human.
Pegasus. He was Medusa's son-by-rape by Poseidon, and formed from her blood when she was slain by Perseus. Classical Mythology is like that. (Some versions add another child, Chrysaor, a golden sword-wielding giant.)
The Book of Genesis has Dinah raped by Shechem, and several Jewish midrashim claim that she had a child. In one version the daughter was taken by angels to Egypt, adopted by Potipher and became Asenath, the eventual wife of Joseph. Another version says she had a son, Shaul; the two were taken in by Dinah's brother Simeon.
Some interpretations claim Goliath was the child of a gang rape.
In Dungeons & Dragons, most half-orcs were implied to be the result of male orcs raping human women after raiding or conquering a human population.
After half-orcs were left out of the original PHB for 4E because of the Unfortunate Implications of this origin, this trope was averted in the PHB 2, which re-introduced the half-orcs to the game and presented a number of non-rape origins for half-orcs in line with the primal power source introduced in the book. The specific examples are: consensual Interspecies Romance between orcs and more primal human populations, humans infused with Gruumsh's essence by being touched by his blood after Corellon put out the Orc-god's eye, creations of Kord that take the best elements of humans and orcs, and creations of an ancient, now-lost hobgoblin empire seeking better troops to lead their orc slaves. It is also noted that bringing this topic up around half-orcs is a good way to get something important broken.
Whereas D&D 4e went the Lighter and Softer route, though, Pathfinder went the Darker and Edgier route and played up this aspect, something that the game's designers have defended as emphasizing both the darker nature of their setting and the innate heroism of half-orc player characters. That said, there are at least two named half-orc NPCs in two separate adventure paths who were born of consensual encounters; a male half-orc pirate in Skull & Shackles who was born to a human man and the female orc he befriended and helped escape, and a female half-orc paladin born to a male orc that abandoned his people's evil waysto marry a human woman.
Some half-elves get born this way as well, particularly in settings where humans and elves have gone to war against each other or are otherwise on hostile terms.
The 2nd edition Monster Manual implies that minotaurs breed by raping women.
Hags, an all-female race, breed by raping human men, then usually kill and eat them. Female offspring are more hags, males (in the settings where they exist) are typically brutish hagspawn.
The Warcraft Expanded Universe implies that some half-orcs in this universe were conceived this way as well, and that the rapist could be of either gender/race. But unlike D&D, most orcs find the concept just as abhorrent as humans do.
Always a possibility for a Scion's origin in Scion; while most gods at least try to get consent, they're more than willing to perform rape-by-deception (it comes from the myths). Meanwhile, most Titanspawn have no scruples - and the all-male minotaurs only reproduce this way.
In Suikoden II, Luca Blight's sister, Jillia, was the product of his mother being raped in front of him. This consequently sent Luca on his spiral into ax craziness.
Ayane from Dead or Alive, whose biological father, Raidou (the Big Bad of the first game), raped the lover of his brother Shiden.
Alistair is stated to be such by his half-sister. The truth is a bit more complex and only covered in the tie-in novels: Alistair is the offspring of an affair between King Maric and an elven Grey Warden mage named Fiona. Since neither elves, mages, or Wardens are well-liked in Ferelden, and Alistair might be a threat to his half-brother Cailan's rule, covering up the truth of his heritage became very important, helped by the fact that he takes after his human parent more than his elven one.
FEAR 2, as Alma becomes pregnant by raping Becket while he's strapped into a machine. And then there's Alma's other sons, as she was impregnated while in a medically-induced coma, only waking up when she was in labor.
Garona Halforcen was retconned into this (along with being a half-orc-half-draenei) in the Warcraft universe. There was always some implication of this with her being half-orc in the first place, as mentioned higher up on the page, but it was only made explicit later.
Rayne (the title character of the BloodRayne games) spends the first game taking down bad guys for the Brimstone Society while waiting for information about the powerful vampire Kagan. She wants to punish him for the heinous crime he committed against her. His crime? Causing her to exist — she was conceived when Kagan raped her human mother.
In the Soul Series, Ivy is the result of this. Her father, Cervantes, raped a barmaid in order to insure that the evil blade has another host should he die, not knowing that it might find another host in Siegfried at first, resulting in Ivy having her cursed blood and adoptive parents.
Many fans of Mystery Case Files believe that Victor is this, being the result of his father's rape of the imprisoned nurse Rose. However, this has not been confirmed in any of the games to date.
Fate's Carnival suggests this is correct if you read the notes for the bobblehead collectibles ... but gives a completely different story in one of the mutoscope reels you find during the game. So who knows?
In Arcanum: Of Steamworks & Magick Obscura, half-ogres (and, to a lesser degree nowadays, half-orcs) have the stigma of rape attached to their origins. The pregenerated half-orge Player Character implies he may be a result of this... But, consensual or not, the ogre was his mother. It later comes to light that a Gnomish Government Conspiracy had been 'mass-producing' half-ogres by mass abduction and rape of human women by ogres in specialised breeding facilities over several years, with the last victim apparently being Tarant's last queen.
Azel of Velthomer in Fire Emblem: Genealogy of the Holy War is the son of Lady Cigyun's favorite maid, who was raped by Cigyun's complete prick of a husband, Lord Victor. Azel turned out to be a Nice Guy, though. (Quite possibly because his dad killed himself not long after that.)
Notably subverted with Gannayev-of-Dreams, your hagspawn companion in Neverwinter Nights 2: Mask of the Betrayer. Hagspawn are normally the product of a hag raping a human male. Gann's parents actually loved each other, which is the reason he's much more handsome than most hagspawn and has greater magical prowess.
Subverted in The Order of the Stick, with Therkla, a half-orc (which are commonly a result of this). When another character points out that her parentage implies "a very ugly backstory", we cut to a flashback of her childhood and discover that instead of rape, her parents were Sickeningly Sweethearts (and her mother was the orc).
In Mob Ties, Mika conceived while in a coma after being raped by Big Bad Bengal. Her father tries to keep it a secret due to the fact that any reminder of the incident sends her into a horrible shock.
Alexi's son in Parallel Dementia. For once, though the mother actually cares for her child and doesn't harbor any bad feelings towards the child.
Becca McKay in Shadowgirls appears to believe that she was the product of a rape committed during her mother's amnesia, since her father has never come forward.
Fireflare is notable for being a well-adjusted child of rape.
And now her wife has one on the way.
Inverted by Ask That Guy with the Glasses. A woman force-fed him viagra and made him have sex with her. After this he ran away because he was so scared of her batshittery. This comes out when the child grew up and asked why he left, resulting in him angrily telling the child he'll see them in hell.
Sometimes discussed in Protectors of the Plot Continuum with the offspring of Mary Sue characters and their victims; the modus operandi of a Mary Sue is to mind-control the target, thus rendering their consent to any sexual contact meaningless. The offspring in question are often adopted by the Protectors when the Sue is killed.