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. 2010 Oct 6;39(Database issue):D606–D611. doi: 10.1093/nar/gkq908

Figure 1.

Figure 1.

An overview of TADB data sets and outputs using the G. uraniireducens Rf4 (NC_009483) TA locus-rich genome as an example. (A) A selected sample of the 74 TA domain pairs identified in this organism by Makarova et al. (4), plus another eight putative TA pairs predicted by RASTA-Bacteria (6) alone. (B) A segment of the circular genome map of G. uraniireducens Rf4 generated using CGview (18) showing TA loci in color code by TA family and TA domain pair. (C) A partial view of the features and sequence of the putative toxin gene Gura_2470 as shown by TADB. Hyperlinks to NCBI Refseq Project, UniProtKB, PDB and/or KEGG are provided. An integrated version of Primer3Plus (21) is available to facilitate design of PCR primers and selected TADB items can be searched against the ACLAME database of mobile genetic elements (24) using Blast via a single link. (D) A schematic view of the wider genomic context of the putative TA locus Gura_2469-Gura_2470 using Gbrowse (17). See text for details of the utility TADB-facilitated localized genome browsing strategy as highlighted by the example of the Gura_2469-Gura_2470 locus.

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