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Molecular Biology and Evolution, Vol 5, 141-153, Copyright © 1988 by Society for Molecular Biology and Evolution

ORIGINAL ARTICLE

Avoidance of base runs in switch regions of immune-system genes

P Perrin and R Grantham
Institut d'Evolution Moleculaire, Universite Claude Bernard Lyon I, Villeurbanne, France.

Mouse immunoglobulin (Ig) switch-region sequences are anti-"runny"; that is, they have a smaller amount of their total bases in homonucleotide tracts ("runs") than would be expected if each nucleotide in the sequence were a random selection from a pool of the composition of the region. The switch sequences involve the first intron of rearranged Ig heavy-chain genes; this intron differs strikingly from the succeeding ones, which are "runny" (have more bases than expected in runs). Switch regions are the only category of sequences so far found to be antirunny by statistical test. This sequence characteristic is related to the presence in switch sequences of repeating heteronucleotides. We suggest that the resulting base dispersion and increased complexity favor more specific interactions between sequences, which may be advantageous in recombinational processes such as switching and translocation.
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