The Arabidopsis cis-regulatory element database (AtcisDB) provides a comprehensive resource for the scientific community working with gene regulatory information of Arabidopsis thaliana, a widely used model dicot plant. AtcisDB consists of a searchable relational database, which includes many different datatypes, such as transcription factor binding site information, promoter sequence and related annotations. The data can be viewed using our interactive browser developed by Genome Data Visualization Toolkit (GDVTK), and analyzed with our pattern recognition tools.

The AtcisDB can be searched by Gene Symbol and Locus ID. The Gene Symbol can be any symbol used by TAIR for gene annotation (eg. NAC, CAF, MYB etc.). The Locus ID is also the ID used by TAIR (eg. At1g01010, At1g01050 etc.). The search results will include the Locus ID, Gene Model that represents that Locus, and cross reference for gene annotation from MIPS, TIGR, TAIR and SALK. The cis-regulatory element annotation for each gene can also be obtained.

The binding sites are color coded with two colors RED and GREY. The RED color indicates that the binding sites are documented to be present in a specific promoter and the GREY color indicates that motifs are predicted in the promoters. For the complete list of binding sites please click here Bindingsites List

Molina, C., and Grotewold, E.
Genome wide analysis of Arabidopsis core promoters BMC Genomics.2005, 6:25.
Abstract | Full Text | PDF

Click here to download Core Promoter data