 If you liked
Futatsu no Spica
|
 ...then you might like
Tsumetai Kousha no Toki wa Tomaru
|
Both are relationship based stories with a dash of supernatural elements in it as well as a ya cast included in as well too and some really nice art and character designs included and tragedy.
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Recommended by Disapeared_Ghost
A School Frozen in Time and Twin Spica are two manga series aimed at boys centered around a group of somewhat tight-knit high school students, many of which have fairly tragic backstories that are gradually revealed throughout the story. There are some supernatural elements as the former features students unable to exit the building, while the latter has a ghost as one of the main characters. There is also a surprising amount of blood, so proceed with caution.