Variation in homeodomain DNA-binding revealed by high-resolution analysis of sequence preferences

ABSTRACT: Most homeodomains are unique within a genome, yet many are highly conserved across vast evolutionary distances, implying strong selection on their precise DNA-binding specificities. We determined the binding preferences of the majority (168) of mouse homeodomains to all possible 8-base sequences, revealing rich and complex patterns of sequence specificity, and showing for the first time that there are at least 65 distinct homeodomain DNA-binding activities. We developed a computational system that successfully predicts binding sites for homeodomain proteins as distant from mouse as Drosophila and C. elegans, and we infer full 8-mer binding profiles for the majority of known animal homeodomains. Our results provide an unprecedented level of resolution in the analysis of this simple domain s

ORGANISM(S): Mus musculus

SUBMITTER: Lourdes Pena-Castillo 

PROVIDER: E-GEOD-11239 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress