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Generates a map of predicted transcription factor binding sites (TFBS) and small RNA target sites for the whole Arabidopsis thaliana genome. AthaMap can be used for bioinformatic predictions of putative regulatory sites. Several online web tools are available that address specific questions. Starting with the identification of transcription factor-binding sites (TFBS) in any gene of interest, colocalizing TFBS can be identified as well as common TFBS in a set of user-provided genes. Furthermore, genes can be identified that are potentially targeted by specific transcription factors or small inhibitory RNAs.

Restrictions to use:
Community driven:
Data access:
File download, Web user interface
User data submission:
Not allowed
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Technische Universität Braunschweig, Institut für Genetik, Braunschweig, Germany; Julius Kühn-Institut, Federal Research Centre for Cultivated Plants, Institute for Breeding Research on Agricultural Crops, Quedlinburg, Germany

Funding source(s)

AthaMap was supported by the German Ministry of Education and Research [BMBF grant Nos. 031U110C/031U210C, 0315037B and 0315459A].

  • (Hehl et al., 2016) Boosting AthaMap Database Content with Data from Protein Binding Microarrays. Plant & cell physiology.
    PMID: 26542109
  • (Hehl and Bulow, 2014) AthaMap web tools for the analysis of transcriptional and posttranscriptional regulation of gene expression in Arabidopsis thaliana. Methods in molecular biology.
    PMID: 24792049
  • (Bulow et al., 2012) ‘MicroRNA Targets’, a new AthaMap web-tool for genome-wide identification of miRNA targets in Arabidopsis thaliana. BioData mining.
    PMID: 22800758
  • (Bulow et al., 2010) AthaMap-assisted transcription factor target gene identification in Arabidopsis thaliana. Database.
    PMID: 21177332
  • (Bulow et al., 2009) AthaMap, integrating transcriptional and post-transcriptional data. Nucleic acids research.
    PMID: 18842622
  • (Galuschka et al., 2007) AthaMap web tools for the analysis and identification of co-regulated genes. Nucleic acids research.
    PMID: 17148485
  • (Bulow et al., 2006) AthaMap: from in silico data to real transcription factor binding sites. In silico biology.
    PMID: 16922688
  • (Steffens et al., 2005) AthaMap web tools for database-assisted identification of combinatorial cis-regulatory elements and the display of highly conserved transcription factor binding sites in Arabidopsis thaliana. Nucleic acids research.
    PMID: 15980498
  • (Steffens et al., 2004) AthaMap: an online resource for in silico transcription factor binding sites in the Arabidopsis thaliana genome. Nucleic acids research.
    PMID: 14681436
  • Plants
    • Arabidopsis thaliana

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