Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis thaliana 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 35 gene models in this family



Gene modelDescriptionDomains
AT1G19220.1 ARF19 (AUXIN RESPONSE FACTOR 11); transcription factor Auxin_resp B3
AT1G19850.1 MP (MONOPTEROS); transcription factor AUX_IAA Auxin_resp B3
AT1G30330.1 ARF6 (AUXIN RESPONSE FACTOR 6); transcription factor Auxin_resp B3
AT1G30330.2 ARF6 (AUXIN RESPONSE FACTOR 6) Auxin_resp B3
AT1G34170.1 ARF13 (AUXIN RESPONSE FACTOR 13); transcription factor Auxin_resp B3
AT1G34170.2 ARF13 (AUXIN RESPONSE FACTOR 13) Auxin_resp B3
AT1G34310.1 ARF12 (AUXIN RESPONSE FACTOR 12); transcription factor AUX_IAA Auxin_resp B3
AT1G34390.1 ARF22 (AUXIN RESPONSE FACTOR 22); transcription factor AUX_IAA Auxin_resp B3
AT1G34410.1 ARF21 (AUXIN RESPONSE FACTOR 21); transcription factor Auxin_resp B3
AT1G35240.1 ARF20 (AUXIN RESPONSE FACTOR 20); transcription factor Auxin_resp B3
AT1G35520.1 ARF15 (AUXIN RESPONSE FACTOR 15); transcription factor Auxin_resp B3
AT1G35540.1 ARF14 (AUXIN RESPONSE FACTOR 14); transcription factor Auxin_resp B3
AT1G59750.1 ARF1 (AUXIN RESPONSE FACTOR 1); transcription factor Auxin_resp B3
AT1G59750.2 ARF1 (AUXIN RESPONSE FACTOR 1); transcription factor Auxin_resp B3
AT1G59750.3 ARF1 (AUXIN RESPONSE FACTOR 1); transcription factor Auxin_resp B3
AT1G77850.1 ARF17 (AUXIN RESPONSE FACTOR 17); transcription factor Auxin_resp B3
AT2G28350.1 ARF10 (AUXIN RESPONSE FACTOR 10); miRNA binding / transcription factor Auxin_resp B3
AT2G33860.1 ETT (ETTIN); transcription factor Auxin_resp B3
AT2G46530.1 ARF11 (AUXIN RESPONSE FACTOR 11); transcription factor AUX_IAA Auxin_resp B3
AT2G46530.2 ARF11 (AUXIN RESPONSE FACTOR 11); transcription factor AUX_IAA Auxin_resp B3
AT2G46530.3 ARF11 (AUXIN RESPONSE FACTOR 11); transcription factor AUX_IAA Auxin_resp B3
AT3G61830.1 ARF18 (AUXIN RESPONSE FACTOR 18); transcription factor AUX_IAA Auxin_resp B3
AT4G23980.1 ARF9 (AUXIN RESPONSE FACTOR 9); transcription factor AUX_IAA Auxin_resp B3
AT4G23980.2 ARF9 (AUXIN RESPONSE FACTOR 9) AUX_IAA Auxin_resp B3
AT4G30080.1 ARF16 (AUXIN RESPONSE FACTOR 16); miRNA binding / transcription factor Auxin_resp B3
AT5G20730.1 NPH4 (NON-PHOTOTROPHIC HYPOCOTYL); transcription factor Auxin_resp B3 Involucrin
AT5G20730.2 NPH4 (NON-PHOTOTROPHIC HYPOCOTYL); transcription factor Auxin_resp B3 Involucrin
AT5G20730.3 NPH4 (NON-PHOTOTROPHIC HYPOCOTYL); transcription factor Auxin_resp B3 Involucrin
AT5G37020.1 ARF8 (AUXIN RESPONSE FACTOR 8); transcription factor Auxin_resp B3
AT5G37020.2 ARF8 (AUXIN RESPONSE FACTOR 8) Auxin_resp B3
AT5G60450.1 ARF4 (AUXIN RESPONSE FACTOR 4); transcription factor Auxin_resp B3
AT5G62000.1 ARF2 (AUXIN RESPONSE FACTOR 2); transcription factor AUX_IAA Auxin_resp B3
AT5G62000.2 ARF2 (AUXIN RESPONSE FACTOR 2); transcription factor AUX_IAA Auxin_resp B3
AT5G62000.3 ARF2 (AUXIN RESPONSE FACTOR 2) AUX_IAA Auxin_resp B3
ATMG00940.1 hypothetical protein Auxin_resp

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

Specific references

Okushima, Y; Overvoorde, PJ; Arima, K; Alonso, JM; Chan, A; Chang, C; Ecker, JR; Hughes, B; Lui, A; Nguyen, D; Onodera, C; Quach, H; Smith, A; Yu, G; Theologis, A. 2005. Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana: unique and overlapping functions of ARF7 and ARF19. Plant Cell 17(2):444-63 PUBMEDID:15659631
Remington, DL; Vision, TJ; Guilfoyle, TJ; Reed, JW. 2004. Contrasting modes of diversification in the Aux/IAA and ARF gene families. Plant Physiol. 135(3):1738-52 PUBMEDID:15247399