Extended Data Fig. 5: Translationally defective transcripts in SMA display specific features.
From: SMN-primed ribosomes modulate the translation of transcripts related to spinal muscular atrophy
a, Localization of proteins synthesized by mRNAs enriched in SMN-primed ribosomes. Manually annotated and reviewed proteins from the UniProt database were considered. b, Lengths comparison of regions of SMN-specific transcripts (n=874) compared with unspecific transcripts (n=4010). Statistical significance was determined with one-sided Wilcoxon-Mann-Whitney tests. c, Logo representation of top enriched motifs in the 5`UTR (left panel) and 3’ UTR (right panel) of SMN-specific transcripts, by discriminative analysis of k-mer composition. d, Over-representation of translational enhancer sequences among SMN-specific transcripts (619, in blue). Annotation of translational enhancer was retrieved from50. two-sided Wilcoxon rank-sum test to calculate the p-value shown. e, Logo-like representation of the most frequent amino-acids in SMN-specific (left) and unspecific RNAs (right) at the beginning of the CDS. f, SMN levels in NSC-34 expressing high and low SMN levels. Comparison between the fraction of ribosomes in polysomes (FRP) in NSC-34 expressing high and low levels of SMN. The results are the average ± SEM. Significant differences were determined using a two-sided t-test. g, Luciferase assays were performed in NSC-34 expressing high or low levels of SMN. Alanine repeats values were set to 1. h, The 5’UTR of Tuba4a was used as control. Results for luciferase assays with or without treatment with rapamycin are reported. In panels (g) and (h) the number of biologically independent experiments is reported. Results are shown as the average ± SEM. Significant changes were assessed using one-sided t-test. i, Fold change of Renilla and Firefly luciferase in cells expressing high vs low levels of SMN. The level of the two transcripts in cells expressing high levels of SMN was set to 1. The number of biologically independent samples is reported and the data represent the average ± SEM. Statistical source data and unprocessed blots are provided in Source data Extended data Fig. 5.
