Fig. 2: Differential HDLBP binding to ER-targeted and cytosolic transcripts.

a Meta-transcript analysis of HDLBP cross-linking signal for cytosolic and membrane-bound mRNAs. T-C transition signal per nucleotide was normalized for library size (T-C per million). Transcripts with at least 5 T-C per million were included in this analysis. T-C per million was scaled to the maximum T-C signal per transcript. At each position, the mean scaled T-C signal was plotted. b Scatter plot of the ratio of HDLBP crosslinks in the CDS vs. 3′ UTR plotted against total crosslinks per mRNA for cytosolic and membrane-bound mRNAs. c mRNAs were split into three groups according to total HDLBP crosslinks per mRNA (n = 16: TC <0.3, membrane, n = 65: 0.3 < TC <1.39, membrane, n = 35:, TC >1.39, membrane, n = 279: TC <0.3, cytosolic, n = 379: 0.3 < TC <1.39, cytosolic, n = 144: TC >1.39, cytosolic) and the distributions of the CDS vs. 3′ UTR ratio of HDLBP crosslinks were plotted. The lower and upper hinges of box plots correspond to the 25th and 75th percentiles, respectively. Upper and lower whiskers extend from the hinge to the largest or smallest value no further than the 1.5× interquartile range from the hinge, respectively. Center lines of box plots depict the median values. d Browser representation of PAR-CLIP read coverage and T-C transitions in IGF2R (membrane-bound) and HNRNPUL1 (cytosolic) mRNAs. Reads were mapped to human mRNA sequences. 5′ UTR, CDS, and 3′ UTR regions are indicated. Transcript IDs are indicated. a–d Source data are provided as a Source Data file.