Plant Transcription factor database - Universität Potsdam
version: 3.0

Physcomitrella patens 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 13 gene models in this family



Gene modelDescriptionDomains
108888 estExt_fgenesh1_pm.C_3390006 Auxin_resp B3
127229 e_gw1.64.107.1 Auxin_resp B3
127416 e_gw1.65.212.1 Auxin_resp B3
131154 e_gw1.86.122.1 Auxin_resp B3
135391 e_gw1.119.103.1 Auxin_resp B3
136986 e_gw1.133.91.1 Auxin_resp B3
148548 e_gw1.279.55.1 Auxin_resp B3
168019 estExt_fgenesh1_pg.C_1630077 Auxin_resp B3
203442 estExt_Genewise1.C_140304 Auxin_resp B3
224167 estExt_Genewise1.C_2800001 Auxin_resp B3
32639 gw1.341.65.1 Auxin_resp B3
50215 gw1.6.284.1 Auxin_resp B3
80375 fgenesh1_pg.scaffold_86000002 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