The following tables list, in order, all of the clones sequenced through the Arabidopsis genome project, and identify molecular and genetic markers that overlap those sequences. The tables include the names of clones sequenced by the Arabidopsis Genome Initiative (AGI), GenBank Accession numbers where available, and the name of the lab that sequenced the region, allowing easy access to preliminary sequence information. The information was obtained from many Arabidopsis web sites (see credits below).

For each chromosome, the sequenced clones were arranged in the most likely order, first by the established overlaps identified by the AGI labs, and second by identifying overlaps with the hybridization and fingerprint contigs (fpc) generated respectively by Thomas Altmann's group and by Marco Marra and colleagues at Washington University. The location of AGI clones annotated as such in the fpc and hybridization databases were confirmed by performing BLAST searches at the TIGR database of BAC-end sequences and then correlating the names of overlapping BAC ends with the contigs. Some inconsistencies were found and are noted in the tables.

Using BLAST and sequence alignments, we have localized many CAPS, SSLP, and RFLP markers to this map, and have listed their positions on the current Recombinant Inbred (RI) map. In some cases, additional connections with markers and the RI map were obtained by hybridization experiments, conducted primarily by the AGI labs. We have also identified cloned phenotypic markers and have indicated their positions on the map maintained by David Meinke.

The information in these tables was compiled by Daphne Preuss and colleagues at the University of Chicago, using mapping data primarily from Thomas Altmann and Marco Marra, and sequencing data from the Arabidopsis Genome Initiative (AGI). This combined map would not have been possible without the generous input of many members of the Arabidopsis community, who made their hybridization data available to both Marco Marra and Thomas Altmann, as well as over the web. The map is displayed in electronic form by Larry Parnell at Cold Spring Harbor Laboratory. The graphical display of anchored fingerprints was compiled by Rob Martienssen. Questions, comments, and corrections are welcome; please direct them to Daphne Preuss or Larry Parnell; Andrew O'Shaughnessy is now in charge of placing the tables on-line at CSHL. If you would like help identifying clones in the unsequenced regions, write to Daphne Preuss. Please send inquiries concerning the fingerprint database to Marco Marra or Rob Martienssen, and the hybridization database to Thomas Altmann.

The Preuss laboratory (Daphne Preuss, Janine Hill, Kate Nickel) compiled these tables to facilitate our analysis of centromeres, recombination, and genes involved in pollination. We hope these maps will also be useful to other researchers, and clearly their utility will improve as more information is compiled. Consequently, if you know of additional CAPS, SSLP, RFLP or other genetic markers, please let us know. Note that all information you send will be displayed. If you are submitting information on new markers, you should also send the relevant primer sequences, the polymorphism detected, your contact information, and the approximate map location; this information will be forwarded to the appropriate CAPS or SSLP page.