"Intransitive or transitive" is not the indicater of that meaning of ~ている form. The key is whether it is an instantenous/change-of-state verb or not. Indeed, most of instantaneous verbs are intransitive, but still there are transitive verbs whose ~ている form express the current state that results from prior movements, just like 知る, 覚える, 閉じる, 開く, 忘れる, 決める, 借りる, 着る,,,,.
As for the example sentence, it expresses "the eraser fell in the past and the current state of it is under the desk". So "The eraser is under the desk" is a good translation.