Organizing thrombus in the form of a skin mass has been rarely reported. A 60-year-old woman presented a tiny tender nodule on the 3rd finger of left hand. The bluish nodule suddenly occurred 6 months ago but gradually changed to pinkish color. Tenderness was the only symptom patient complained. Under the first impression of ganglion cyst, we performed needle aspiration but nothing was come out. Then, excisional biopsy was performed under the impression of glomus tumor, but histopathologic findings showed a thrombus surrounded by fibrous tissues composed of fibroblasts and endothelial cells, compatible for the diagnosis of organizing thrombus. Because glomus tumors also frequently present as blue-red tender nodules, it is not easy to differentiate from each other. As organizing thrombus can be managed conservatively, it is important to distinguish between the two. It is not clear whether thrombosis in digital vein is associated with thrombosis in other organs. However, a previous report described a patient with deep vein thrombosis of both legs and recurrent lung emboli preceded by digital palmar vein thrombotic nodules. Therefore, evaluation of hypercoagulability may be necessary for patients with organizing thrombus. In this patient, all laboratory tests were within the normal range. Herein, we report a case of organizing thrombus spontaneously occurred in palmar digital vein.