ISfinder: the reference centre for bacterial insertion sequences

ISfinder (www-is.biotoul.fr) is a dedicated database for bacterial insertion sequences (ISs). It has superseded the Stanford reference center. One of its functions is to assign IS names and to provide a focal point for a coherent nomenclature. It is also the repository for ISs. Each new IS is indexed together with information such as its DNA sequence and open reading frames or potential coding sequences, the sequence of the ends of the element and target sites, its origin and distribution together with a bibliography where available. Another objective is to continuously monitor ISs to provide updated comprehensive groupings or families and to provide some insight into their phylogenies. The site also contains extensive background information on ISs and transposons in general. Online tools are gradually being added. At present an online Blast facility against the entire bank is available. But additional features will include alignment capability, PsiBLAST and HMM profiles. ISfinder als...

• Type: Journal
• Year: 2006
• Where: NAR
• Authors: P. Siguier, J. Perochon, L. Lestrade, J. Mahillon, M. Chandler
• Keywords: Bacterial Insertion Sequences, NAR 2006, Potential Coding Sequences, Stanford Reference Center