Expression analysis of genes with short RNAs and their close neighbors. (A) Schematic representation of the investigated loci. (B) RT-qPCR analysis of mRNA levels in wt, clone 5 and clone 12. The values represent the ΔcT values as compared to β-actin. The genes producing the short RNAs are in bold. The assays for the genes not detectable in HEK293 cells (NLRP9 and GPR44) were tested positive using CaCo-2 cells which express these genes. All the standard deviations are below 1 PCR cycle.