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Mutations in  RPGRIP1  are associated with early onset retinal degenerations in humans and dogs. Dogs homozygous for a 44 bp insertion including a polyA 29  tract potentially leading to premature truncation of the protein, show cone rod degeneration. This is rapid and blinding in a colony of dogs in which the mutation was characterised but in dogs with the same mutation in the pet population there is very variable disease severity and rate of progression.    Objective  We hypothesized that this variability must be associated with leakiness of the  RPGRIP1  mutation, allowing continued RPGRIP1 production. The study was designed to discover mechanisms that might allow such leakiness.    Methods  We analysed alternate start sites and splicing of  RPGRIP1  transcripts; variability of polyA n  length in the insertion and slippage at polyA n  during transcription/translation.    Results and Significance  We observed a low rate of use of alternative start codons having potential to allow forms of transcript not including the insertion, with the possibility of encoding truncated functional RPGRIP1 protein isoforms. Complex alternative splicing was observed, but did not increase this potential. Variable polyA n  length was confirmed in DNA from different  RPGRIP1   −/−  dogs, yet polyA n  variability did not correspond with the clinical phenotypes and no individual was found that carried a polyA n  tract capable of encoding an in-frame variant. Remarkably though, in luciferase reporter gene assays, out-of-frame inserts still allowed downstream reporter gene expression at some 40% of the efficiency of in-frame controls. This indicates a major role of transcriptional or translational frameshifting in  RPGRIP1  expression. The known slippage of reverse transcriptases as well as RNA polymerases and thermostable DNA polymerases on oligoA homopolymers meant that we could not distinguish whether the majority of slippage was transcriptional or translational. This leakiness at the mutation site may allow escape from severe effects of the mutation for some dogs.

Multiple Mechanisms Contribute to Leakiness of a Frameshift Mutation in Canine Cone-Rod Dystrophy