DNA DNA binding sites Scaffold-attachment region This includes sites involved with DNA replication and recombination. This includes binding sites for initiation of replication (origin of replication), regions where transfer is initiated during the conjugation or mobilisation (origin of transfer), starting sites for DNA duplication (origin of replication) and regions which are eliminated through any of kind of recombination. Also nucleosome exclusion regions, i.e. specific patterns or regions which exclude nucleosomes (the basic structural units of eukaryotic chromatin which play a significant role in regulating gene expression). Matrix-attachment region Ribosome binding sites Nucleic acids binding to some other molecule. Nucleosome exclusion sequences Matrix/scaffold attachment region DNA_binding_sites Restriction sites This includes ribosome binding sites (Shine-Dalgarno sequence in prokaryotes), restriction enzyme recognition sites (restriction sites) etc. beta13 Nucleic acid sites, features and motifs