Fig. 3

Analysis of the biological functions and the potential regulatory mechanisms of tissue-specific eRNAs. a The number of tissue-specific eRNAs and genes in each tissue between Enshi Black (ES) and Duroc pigs. b Gene ontology (GO) analysis reveals biological process pathways relevant to eRNAs expressed in a tissue- and breed-specific manner. GO enrichment analysis was performed based on the neighboring genes of eRNAs. c Tissue-specific genes were significantly enriched within ± 1 Mb distance of tissue-specific eRNAs. Statistical significance was assessed using the hypergeometric test (**P < 0.01). d Enrichment analysis of tissue-specific eRNAs in super-enhancers (SE). Statistical significance was assessed using the hypergeometric test (**P < 0.01). e Motif enrichment analysis of tissue-specific eRNAs. Red dots represent transcription factors (TF) with a DNA binding motif that were significantly enriched in adipose-specific eRNAs; green dots represent those that were significantly enriched in muscle-specific eRNAs; dark blue dots represent those that were significantly enriched in both fat and muscle-specific eRNAs. The size of the dots represents the expression level of corresponding TF