Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis lyrata ARF Family

Description

Guilfoyle et al. 1998: Auxin response factors or ARFs are a recently discovered family of transcription factors that bind with specificity to auxin response elements (AuxREs) in promoters of primary or early auxin-responsive genes. ARFs have an amino-terminal DNA-binding domain related to the carboxyl-terminal DNA-binding domain in the maize transactivator VIVIPAROUS1. All but one ARF identified to date contain a carboxyl-terminal protein-protein interaction domain that forms a putative amphipathic alpha-helix. A similar carboxyl-terminal protein-protein interaction domain is found in the Aux/IAA class of auxin-inducible proteins. Some ARFs contain transcriptional activation domains, while others contain repression domains. ARFs appear to play a pivotal role in auxin-regulated gene expression of primary response genes.

Members of this family
  SHOULD possess Auxin_resp domain

Domain alignments

Benchmark against A. thaliana

The Sensitivity and Positive Predictive Value (PPV) were assessed for this family. The data reported by Remington et al. 2004 for A. thaliana were taken as gold standard.

The gold standard reported 23 members for this family, 21 of which are present in ArabTFDB, giving a PPV of 0.95. Two additional members not present in ArabTFDB might be false negatives, giving a Sensitivity of 0.91.

This family is also present in:

References

There are 22 gene models in this family



Gene modelDescriptionDomains
319704 fgenesh1_pm.C_scaffold_3002720 Auxin_resp B3
335174 fgenesh1_pg.C_scaffold_1001739 Auxin_resp B3
336503 fgenesh1_pg.C_scaffold_1003068 Auxin_resp B3
349241 fgenesh1_pg.C_scaffold_5002633 AUX_IAA Auxin_resp B3
472210 fgenesh2_kg.1__2164__AT1G19850.1 AUX_IAA Auxin_resp B3
473256 fgenesh2_kg.1__3210__AT1G30330.2 Auxin_resp B3
473654 fgenesh2_kg.1__3608__AT1G35540.1 Auxin_resp B3
475338 fgenesh2_kg.2__468__AT1G59750.1 Auxin_resp B3
481671 fgenesh2_kg.4__731__AT2G28350.1 Auxin_resp B3
488981 fgenesh2_kg.6__2115__AT5G20730.1 Auxin_resp B3 Involucrin
493698 fgenesh2_kg.7__3131__AT5G37020.1 Auxin_resp B3
496192 fgenesh2_kg.8__2008__AT5G60450.1 Auxin_resp B3
858253 Al_scaffold_0007_1752 AUX_IAA Auxin_resp B3
875406 Al_scaffold_0003_4047 Auxin_resp
881733 Al_scaffold_0001_3500 Auxin_resp B3
881982 Al_scaffold_0001_3749 Auxin_resp B3
895674 scaffold_202748.1 Auxin_resp B3
899493 scaffold_303463.1 Auxin_resp
902476 scaffold_401977.1 Auxin_resp B3
904120 scaffold_403621.1 AUX_IAA Auxin_resp B3
913475 scaffold_701217.1 Auxin_resp B3
919450 scaffold_802850.1 AUX_IAA Auxin_resp B3

General references

Guilfoyle, TJ; Ulmasov, T; Hagen, G. 1998. The ARF family of transcription factors and their role in plant hormone-responsive transcription. Cell. Mol. Life Sci. 54(7):619-27 PUBMEDID:9711229
Ulmasov, T; Hagen, G; Guilfoyle, TJ. 1997. ARF1, a transcription factor that binds to auxin response elements. Science 276(5320):1865-8 PUBMEDID:9188533