Abstract. A nonconformity refers to a hiatal surface located between metamorphic or igneous rocks and overlying sedimentary or volcanic rocks. Those surfaces are key features to understand the relations among climate, lithosphere and tectonic movements during ancient time. In this study, the petrological, mineralogical, and geochemical characteristics of Variscan basement rock and its overlying Permian volcano-sedimentary succession from a drill core in the Sprendlinger Horst, Germany are analyzed by means of polarization microscopy, and environmental scanning electron microscope, X-Ray diffraction, X-ray fluorescence and Inductively Coupled Plasma Mass Spectrometry analyses. In the gabbroic diorite of the basement, the intensity of micro- and macro-fractures increases towards the top indicating an intense physical weathering. The overlying Permian volcanic rock is a basaltic andesite which shows less intense physical weathering compared to the gabbroic diorite. In both segments, secondary minerals are dominated by illite and a mix-layer phase of illite and smectite (I/S). The corrected chemical index of alteration (CIA) and the plagioclase index of alteration (PIA) indicate an intermediate to unweathered degree in the gabbroic diorite and an extreme to unweathered degree in the basaltic andesite. The τ value for both basaltic andesite and gabbroic diorite indicate an abnormal enrichment of K, Rb, and Cs that cannot be observed in the overlying Permian sedimentary rocks. Accompanying hydrothermal minerals such as adularia suggest subsequent overprint by (K-rich) hydrothermal fluids during burial diagenesis which promoted the conversion from smectite to illite. The overall order of element depletion in both basaltic andesite and gabbroic diorite during the weathering process is as follows: Large Ion Lithophile Elements (LILE) > Rear earth elements (REE) > High Field Strength Element (HFSE). Concerning the REE, heavy rare earth elements (HREE) are less depleted than light rare earth elements (LREE). Our study shows that features of supergene physical and chemical paleo-weathering are well conserved at the post-Variscan nonconformity despite hypogene alteration. Both can be distinguished by characteristic minerals and geochemical indices, with the results, a new workflow to eliminate distractions for paleoclimate evaluation and evolution is well developed.