The mouse is a quickly reproducing, inexpensive animal and often used for transgenic approaches. Due to its small size, only the aorta is frequently taken to assess vascular function. However, atherosclerosis is a generalized disease and becomes symptomatic when the perfusion of specific organs is impaired. We have therefore compared the thoracic and abdominal aorta with carotid, femoral, mesenteric, renal and coronary arteries to see whether aortic vasomotion can indeed serve as a surrogate for other, organ-specific vascular territories. Arterial segments of male C57BL/6J mice were dissected and mounted on a myograph for isometric force measurement. Vasoconstriction was determined in response to depolarization by potassium chloride (KCl), which was not different with or without an α-adrenoceptor antagonist. Vascular responses were determined in response to receptor activation by the neurotransmitter norepinephrine (± inhibition of nitric oxide synthase; ± α- and β-adrenoceptor antagonists) and the platelet-derived mediator serotonin (± inhibition of nitric oxide synthesis; ± 5-hydroxytryptamine receptor antagonist). Endothelium-dependent and -independent vasodilation was determined in response to carbachol and nitroprusside after norepinephrine-induced pre-constriction (± β-adrenoceptor antagonist). Vasoconstriction in response to KCl, norepinephrine and serotonin differed in magnitude between thoracic and abdominal aorta and between aorta and the other arterial segments. Endothelium-dependent and -independent vasodilation differed also in magnitude between the arterial segments. Thus, the murine aorta is not a general surrogate to assess vascular function of organ-specific vascular territories.