Table 2 mRNA editing screening in adult chicken liver and adipose tissue
ChromosomePositionDNA AlleleRNA AlleleCanonicalValidation in SangerValidation in PyroMarkReplicatesaGene NamesbLocalizationc
WAT179605543TCyes3PLA1A, POPDC2Downstream gene
190873162TCyes3MPZL1, BRP44Downstream gene
1103511385TCyes6GRIK1Intron
1167109833AGyesyesyes3COG3Exon (missense)
1169769193AGyes3THSD1Downstream gene
1187056174AGyes3NOX4Downstream gene
1187056183AGyes3NOX4Downstream gene
1187057565AGyes3Intergenic
286000926TCyesyesyes5NDUFS6Upstream
417996546TCyes4Intergenic
522958596TCyes3DGKZIntron
1110634278AGyes5CES1Exon (missense)
1119169664ACnonono3DHODH, IST1Upstream, Intron
128909946AGyesyesyes6FLNBExon (missense)
128910897AGyes5FLNBIntron
174705TCyes3Intron
1794999CTyes6Intergenic
1828378TCyes6ZNF302Upstream
194812610CTyes4CCLI8Intron
Liver179608260TCyesyesyes7POPDC2, PLA1ADownstream gene
190873162TCyes3MPZL1, BRP44Downstream gene
190873188TCyesyesyes4MPZL1, BRP44Downstream gene
1167109833AGyesyesyes5COG3Exon (missense)
1193343226AGyes6MADPRT, ART7BUpstream
286000926TCyesyesyes5NDUFS6Upstream
613236424AGyes3KCNMA1Exon (missense)
77564791AGyesyesyes5MYO1BIntron
825588113TCyes3Exon (synonymous)
28518606ACnoyesno3HNRNPMMissense
LGE64615592TCyes4Intron
  • In italics, mRNA editing events common to both tissues; in bold, mRNA editing candidate events subjected to Sanger genomic DNA sequencing and cDNA pyrosequencing; Underlined, mRNA editing events annotated as “coding - missense” and located in four different genes.

  • a Number of samples in which the mRNA editing event is detected.

  • b Name of the gene impacted by the mRNA editing event or name of the closest genes (<10 kb) if the mRNA editing event is falling in an intergenic region.

  • c Localization of the mRNA editing event inside genomic features, as predicted by Variant Effect Predictor (McLaren et al. 2010). If the mRNA editing event is falling inside a coding region, its impact on gene product is given in brackets.