The Itapema Formation in the Santos Basin is described as a carbonate coquina interval, a type of sedimentary rock composed mainly by shells and their fragments. These rocks have different textural characteristics related to depositional and diagenetic processes, which influence the pore system and consequently the permeability. Understanding how the different facies are distributed and their relationship with petrophysics is essential to preview the quality of a reservoir. In this study, we classify the shell beds of the Itapema Formation through taphonomic characteristics, applying the concept of taphofacies, where taphonomic patterns such as orientation of shells, degree of packing, fragmentation of shells, abrasion, rounding, and sorting (type of grains) are used to differentiate shell concentrations. Six taphofacies (Tf-1 to Tf-6) were described in a core interval of 12 m, which corresponds to the Itapema Formation. Taphofacies Tf-1 and Tf-2 are well-sorted and unsorted grainstones/rudstones with parallel-oriented and densely packed shells with a braded valves. Taphofacies Tf-3 and Tf-4 are well-sorted and unsorted grainstones/rudstones with oblique oriented shells, generally well-preserved but often with high shell dissolution. Taphofacies Tf-5 and Tf-6 are well-sorted and unsorted grainstones/rudstones with randomly oriented shells and densely packed deposits. In general, all the well-sorted taphofacies are composed mainly of shells and their fragments, do not show mud matrix or even shell fragments smaller than 0.2 mm, the size of valves varies from 0.5 to 5 mm and shell fragments are the smallest components. The unsorted taphofacies contain grains smaller than 0.2 mm, most of them peloids, and very small shell fragments. Through the analysis of thin sections, x-ray tomography (CT), high resolution tomography (H-CT) and Nuclear Magnetic Resonance (NMR) it was possible to quantify the porosity in the described taphofacies and classify them according to Choquette and Pray (1970) and Ahr (2008). In well-sorted taphofacies primary pores are preserved; the total porosity varies from 9% to 21% in thin sections, and mainly consists of interparticle, intraparticle, and moldic pores and vugs. The control of porosity varies from depositional to hybrid 1, according to Ahr (2008), and pores are generally connected. In unsorted taphofacies, preserved primary porosity is uncommon and most pores are moldic and vugs. The total porosity in this facies varies from 2 to 15%, although almost all values are between 10% and 15%. The control of porosity varies from hybrid 1 to diagenetic, based on Ahr (2008), and the connectivity varies. Despite these textural differences between well-sorted and unsorted taphofacies, in general, the porosity is good and varies between 10% and 25%. The permeability in well-sorted taphofacies varies from 0.3 to 8 D, the high values being associated with a connected porous system, whereas in unsorted taphofacies the permeability varies from 0.01 to 0.4 D due to the occurrence of isolated vugs and moldic pores. The well-sorted coquinas were interpreted as deposits influenced by storm-induced currents and waves where the energy was sufficient to winnow the finer grains and preserve the primary pores. The taphonomic characteristics indicate tempestites to shoreface deposits, whereas in unsorted taphofacies the energy was not sufficient to remove finer grains generally associated with distal tempestites and backshore deposits. • Shell concentration (coquinas) pore types and petrophysics. • Taphofacies interpretation and their relationship with porosity and permeability. • Porosity control in carbonate coquina deposits. • Permeability distribution in carbonate coquinas reservoir.