Reproducibility in organ size and shape is a fundamental trait of living organisms. The mechanisms underlying such robustness remain, however, to be elucidated. In the manuscript "Robustness of organ morphology is associated with modules of co-expressed genes related to plant cell wall", doi: https://doi.org/10.1101/2022.04.26.489498, we took the sepal of Arabidopsis as a model, and we investigated whether variability of gene expression plays a role in variation of organ morphology. To address this question, we produced a dataset composed of both transcriptomic and morphological information obtained from 27 individual sepals from wild-type plants. This repository contains the raw confocal image of 30 sepals used as starting point for the analysis, as well as their extracted contours as binary images. These images were used to recover the 3D shape of the sepals. The 30 abaxial sepals were collected at early stage 11, from three different Col-0 wild-type plants, labeled D, E and F, grown simultaneously in experimentally controlled standard conditions. Each sepal was imaged under a confocal microscope using autofluorescence. Immediately following imaging, the sepal was frozen in liquid nitrogen for RNA extraction, on which an RNA-seq analysis was performed. Related informations : The repository of the numerical tools used for 3D shape extraction as well as the results of geometrical measurements is here. The repository of RNA-Seq analysis results of these same sepals is here. And the analysis tools used to relate geometrical measurements to RNA-seq data are here.