Figure 5. Chimeric eCLIP for spliceosomal RNA-associated RBPs enrich for snoRNA-snRNA interactions.

(A) Points indicate C/D box snoRNA fold-enrichment of non-chimeric reads from chimeric eCLIP of FBL versus LARP7 in HepG2 cells. Datapoints for C/D snoRNAs with U6 interactions annotated in snoDB are colored. Datapoints with less than 5 reads in IP were discarded.

(B) Points indicate C/D box snoRNA chimeric read abundance (RPM) from chimeric eCLIP of FBL versus LARP7. Datapoints for C/D snoRNAs with U6 interactions annotated in snoDB are colored.

(C) Heatmap of snoRNA chimeric read abundance (RPM) from FBL, LARP7, and NOLC1 chimeric eCLIP for all snoRNAs with U6 interactions annotated in snoDB.

(D) Browser tracks show read density (per million chimeric reads) for snoRNA chimeras along the U6 snRNA for U6-interacting snoRNAs.

(E) Points indicate snoRNA:U6 chimeric read abundance (RPM) from FBL or LARP7 chimeric eCLIP. Colors indicate snoRNAs classified as (green) LARP7-associated U6 snoRNAs, (light green) Non-LARP7-associated U6 snoRNAs, and (grey) all other snoRNAs. * indicates P < 0.05, unpaired two sample t-test.

(F) Points indicate snoRNA:rRNA chimeric read abundance (RPM) for snoRNAs with known rRNA target sites from FBL or LAPR7 chimeric eCLIP. * indicates P < 0.05, unpaired two-sample t-test.

(G) Stacked bar plot indicates the target frequency of snoRNA:snRNA chimeric reads (RPM) recovered in chimeric eCLIP for the indicated RBPs.

(H) Points indicate non-chimeric snoRNA fold-enrichment in FBL versus NOLC1 chimeric eCLIP in HepG2 cells. Datapoints with less than 5 reads in IP were discarded. Circle outline color represents the type of SCARNA with (blue) C/D box motif, including C/D SCARNAs and Tandem-CD SCARNAs), (pink) H/ACA box motif, including H/ACA SCARNAs and Tandem-H/ACA SCARNAs, and (orange) hybrid SCARNAs that possess both C/D and H/ACA box motifs.

(I) Points indicate snoRNA chimeric read abundance (RPM) in FBL versus NOLC1 chimeric eCLIP.

(J) Browser tracks show read density (per million chimeric reads) for snoRNA:U2 chimeric reads along the U2 snRNA for known and candidate U2-interacting snoRNAs.

RPM: reads per million sequenced reads.