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- Seating◊ in Mahou Sensei Negima!:
- Sayo near the left corner window-seat so she can stare wistfully at freedom; her friend Asakura so she has a good view of the room, giving her the best ability to take pictures.
- Chisame and Yue in the far back and middle to observe the stupidity of their class; Haruna is next to Yue because the two are librarians.
- Ayaka in the front and middle to best serve Negi-sensei. It also gives her a commanding air.
- Evangeline sits in the only desk that makes up the fifth row to the right - helps her sleep in class and not get called on for questions; Chachamaru in front of her to be as useful as possible; Hakase beside Chachamaru to easily repair her when necessary (in other words, the last two sit where they do to be convenient to Eva).
- Asuna and Konoka in the second to back and middle to effectively be in the center of the room. Being room-mates with The Hero warrants this sort of placement.
- Zazie in the corner, in order to be on panel the least amount of time as possible, to add to her mysteriousness.
- Neon Genesis Evangelion: Rei gets the symbolic window seat.
- MM!: Taro Sado: keeper of the seat in the second row back, along the side with the windows.
- Death Note: Light also gets the symbolic window seat, and it also gives him a great view to the yard where the death note gets dropped.
- Meaningfully Named Mikado Ryugamine gets a window seat that's in the second-to-last row.
- A minor character, Rio Kamichika, also has a window seat from which she can stare out wistfully and contemplate the world and its many odd inhabitants.
- The plot of Haruhi Suzumiya starts largely because Kyon happened to be seated directly in front of Haruhi. Haruhi, for the record, was in the center of the room, where everyone could get a good look at her when she made her famous announcement. When the seats were re-arranged at random, Kyon ended up in the second to last seat by the window, where he could stare wistfully outside...and right in front of Haruhi again. Though that last part is justified, it's unclear if it is justified because Haruhi is a subconscious Reality Warper who wanted to stay near Kyon or because the Class Representative (who had a vested interest in Kyon interacting with Haruhi) rigged the lottery to keep them together.
- In Terror in Resonance, when Nine transfers to Lisa's school, he's given the second-to-last seat next to the window, which is rather conveniently empty.
- Azumanga Daioh: Sakaki is planted in the window seat and a majority of the main cast sits in the next row over, with Tomo situated on the opposite side of the room and Chiyo in the middle of the front row. Most conversations in the show tend to happen towards the back of the classroom, near Sakaki's desk.
- Natsume, the protagonist of Natsume's Book of Friends, sits in a seat by the window between his friends, Kitamoto and Nishimura, and is usually shown looking outside during class time, thinking about his most recent Youkai experience.
- In Cardcaptor Sakura, Sakura is in the ever-popular window seat, with Tomoyo next to her, Shaoran behind her, and Meiling and later Eriol behind Tomoyo.
- In Puella Magi Madoka Magica, titular character Madoka sits in the middle of the class, at a perfect angle to see her teachers rants in camera view, oddly enough, shady Homura sits in front next to the door, though this was probably done to emphasize her ace student quality as well as to give Madoka a good angle to stare at her, as it would be awkward if Madoka spent class turned around. Sayaka is also in the same class.
- In K-On! the main character Yui Hirasawa sits in the window seat in the last row of the classroom and the drummer Ritsu Tainaka sits in front of her.
- In Bakuman。:
- In first chapters, Mashiro sits in a row behind Azuki's, which gives him an oportunity to observe her during the class and thus draw a sketch of her in his notebook.
- Takagi's seat is in the back row, which gives him an oportunity to observe all his colleagues and notice how Mashiro looks at Azuki.
- Then, after Mashiro and Azuki promised to each other that they will not meet until they fulfil their dreams, a big shuffle happens (for the purpose of having boys and girls sit next to each other) which puts the two of them seated at the same desk. Cue the embarassed looks on their faces and Takagi (who is again convenently seated in the back row) almost bursting into laugh.
- In No Matter How I Look at It, It's You Guys' Fault I'm Not Popular!, when the second semester starts and Tomoko loses her back row seat by the window, she lampshades it by commenting about how lucky she was getting "the seat main characters always get in anime and light-novels" in the first period, lamenting that she now has to dwell in an awkward spot, surrounded by people.
- Deconstructed and Played for Laughs in Is This a Zombie?. Ayumu being a zombie who dries up in sunlight, well... Good Thing You Can Heal.
- In School Rumble, Tenma sits in "That" seat, with Karasama right in front of her and Harima to her right. However, it's Karasama who spends all his time looking out the window.
- The cast of Kin-iro Mosaic occupies both spots◊; Alice and Shinobu (circled red) in the middle of the front row, and Aya and Youko (circled in blue) at the window seats.
- Tsukune from Rosario + Vampire sits on the second-last seat with the window on the left. Moka sits behind him, Mizore sits in front of him, and Kurumu sits next to Moka. In the following year, their seat positions are the same, and Yukari is now sitting next to Mizore.
- Most of the lead characters from the Pretty Cure franchise sit in window seats. Though, only one of them sit in the infamous seat, the second seat from the back, along the side with the windows.
- In Futari wa Pretty Cure and its sequel, Nagisa sits on the window seat of the third back row... the class seams to be bigger than other examples. The third main character Hikari sits on the infamous seat in her class.
- In Futari Wa Pretty Cure Splash Star, Saki sits in the infamous seat.
- In Yes! Pretty Cure 5 and its sequel, Nozomi and Rin sit in the second front row, so the camera can catch them and their teacher Kokoda/Coco. Sometimes, the sit near to the window - they sit on benches. However, the windows are too high and nobody can look out of the windows.
- In Fresh Pretty Cure! and HeartCatch Pretty Cure!, the respective lancers Setsuna and Erika sit in the last seat along the windows, while the heroines Love and Tsubomi sit next to their right side.
- In Suite Pretty Cure ♪, Smile Pretty Cure!, DokiDoki! Precure and Maho Girls Precure, the respective heroines Hibiki, Miyuki, Mana, and Mirai sit in the last seat along the windows. Miyuki's lancer Akane; and Riko sit in the infamous seat.
- Sakura Trick:
- Inconvenient seating kicks off the plot of Sakura Trick— The main characters find themselves at opposite ends of the classroom, and so feel the need to do something special to stay close even when they're forced apart. They choose kissing.
- On a marcoscopic angle this trope is also played straight. All the cast sit on the row next to the window, or the row directly next to it.
- Yugami-kun ni wa Tomodachi ga Inai: Yugami gets the window seat and sits in the very back row by himself — until Chihiro transfers in and sits next to him.
- In Tonari no Kashiwagi-san Yuuto and Kotone starts off with their desks next to each other. It's probably because of the Economy Cast that they sit in the far back, so it's easier to not include other characters. For their third year, they arrange this themselves, when Yuuto and Kazuki switch seats, for both their benefits.
- In one Sally Forth (Howard) storyline in which Hilary was excited about a novel-writing project, she was suddenly sitting in the front row so she and the teacher could both be in panel while discussing it. This was promptly lampshaded when the teacher asked if Hil had switched seats with someone during the anouncement.
- Tomoya, in CLANNAD sits second from the back next to the window, with Sunohara next to him, Ryou is also in the same class.
- In Grisaia no Kajitsu, Yuuji Kazami sits in the back seat next to the window. He's one of only six people in a classroom that inexplicably has thirty-six seats, but he still chooses a window seat. Yumiko also has one.
- Keiichi, the main character of Higurashi: When They Cry always sits in the second-to-last row, along the windows. The girls in the series all sit next to him as well.
- Yuiichi, in the more recent anime adaptation of Kanon sits in the second-to-last seat along the left windows. Three of his closest friends, including his cousin, all sit in the three seats directly adjacent to him. His seating next to the window is also particularly more convenient to the story as it allows him to see Shiori in the courtyard whenever she appears.
- In Katawa Shoujo, Hisao has the seat second from the back next to the window, which (rather conveniently) was the only available seat. Though this might be to do with the fact that Misha Mikado and Shizune Hakamichi are sitting right alongside it...
- Timmy Turner sits in the first row (along with his two best friends) right in front of Mr. Crocker.
- Bart Simpson generally sits in the middle of the class, but sometimes sits by the window if he's supposed to get distracted by something outside. Lisa generally sits in the middle of the second row from the front.
- Batman Beyond has a tendency to show Terry and any other important character (Max, Dana, Nelson, etc.) in the front row, no matter how improbable it is that they would choose to sit there. Perhaps assigned seating?
- Beavis And Butthead sit in the middle of the back row in every class, with nobody else in that row and their desks out of line with the rest of the class. It saves a lot of trouble having to constantly animate people around them, presumably. Could be explained by nobody wanting to sit near them.