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Comparative Study
. 2006 Oct;12(10):1802-9.
doi: 10.1261/rna.165106. Epub 2006 Aug 29.

RNA editing level in the mouse is determined by the genomic repeat repertoire

Yossef Neeman  1 , Erez Y Levanon, Michael F Jantsch, Eli Eisenberg
Affiliations
Comparative Study

RNA editing level in the mouse is determined by the genomic repeat repertoire

Yossef Neeman et al. RNA. 2006 Oct.

Abstract

A-to-I RNA editing is the conversion of adenosine to inosine in double-stranded cellular and viral RNAs. Recently, abundant editing of human transcripts affecting thousands of genes has been reported. Most editing sites are confined to the primate-specific Alu repeats. Notably, the editing level in mouse was shown to be much lower. In order to find the reason for this dramatic difference, here we identify editing sites within mouse repeats and analyze the sequence properties required for RNA editing. Our results show that the overall rate of RNA editing is determined by specific properties of different repeat families such as abundance, length, and divergence. We show that the striking difference in editing levels between human and mouse is mostly due to the higher divergence of the different mouse repeats.

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Figures

FIGURE 1.
FIGURE 1.
Mismatch distributions within mouse RNA sequences: (A) all mismatches, (B) mismatches within clusters of at least three consecutive identical mismatches, (C) mismatches within clusters that reside within one of the mouse repeats, and (D) mismatches within clusters that reside within paired repeats. Paired repeats are repeats within exons for which the closest inverted repeat of the same family resides within 2000 nt.
FIGURE 2.
FIGURE 2.
Mismatch distributions as a function of the distance to the closest inverted repeat of the same family. The overrepresentation of A-to-G mismatches is almost entirely due to repeats whose closest inverted repeat resides within 2000 nt.
See this image and copyright information in PMC

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References

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