Fig. 3

Expression levels, exon–intron structures, and protein structures for A TMEM11 and B GP6. The upper panel is a ‘Sashimi’ plot showing the total depth of RNA-seq read coverage across all tissues, with labeled arcs showing the number of spliced reads supporting each possible intron. Below that are the exon–intron structures, with the MANE isoform at the top, highlighted in pink. Protein-coding regions of exons are shown in blue and orange, where orange indicates sequence that is in a different reading frame from the MANE isoform. A The alternative isoform for TMEM11, CHS.21604.2, is unique to CHESS. The bottom shows the protein structure of both isoforms as predicted by ColabFold/Alphafold2, showing that the extra sequence in the MANE isoform is an unstructured loop. B Similar plots for 3 isoforms of GP6. An additional panel shows a zoomed-in view of the region spanning the last intron, where 15,254 spliced reads support the longer intron (in CHS.27581.1 and CHS.27581.2), while 1177 reads support the shorter intron used in the MANE isoform, CHS.27581.3. The structures at bottom show that the MANE isoform (left) has a highly disordered structure, which explains its low pLDDT score of 49.3, while the CHESS isoform on the right, which is also the highest-expressed transcript at this locus, has a score of 74.5