Plant Transcription factor database - Universität Potsdam
version: 3.0

Oryza sativa subsp. indica 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 23 gene models in this family



Gene modelDescriptionDomains
OsIBCD000889 Chr01_1307,2100,,,1,2100, Auxin_resp B3
OsIBCD002863 Chr01_4516,2145,,,1,2145, Auxin_resp B3
OsIBCD003335 Chr01_5177,1977,,,1,1977, Auxin_resp B3
OsIBCD004370 Chr01_6677,2565,,,1,2565, AUX_IAA Auxin_resp B3
OsIBCD005019 Chr02_418,3204,,,1,3204, Auxin_resp B3
OsIBCD005173 Chr02_682,2727,,,1,2727, Auxin_resp B3
OsIBCD006861 Chr02_3486,2037,,,1,2037, AUX_IAA Auxin_resp B3
OsIBCD007290 Chr02_4118,2349,,,1,2349, Auxin_resp B3
OsIBCD014445 Chr04_2966,1983,,,1,1983, AUX_IAA Auxin_resp B3
OsIBCD014998 Chr04_3734,2100,,,1,2100, Auxin_resp B3
OsIBCD015915 Chr04_5034,2781,,,1,2781, AUX_IAA Auxin_resp B3
OsIBCD016097 Chr04_5285,1578,,,1,1578, Auxin_resp B3
OsIBCD018883 Chr05_4492,2139,,,1,2139, Auxin_resp B3
OsIBCD019711 Chr06_915,3168,,,1,3168, Auxin_resp B3
OsIBCD021781 Chr06_4422,2982,,,1,2982, Auxin_resp B3
OsIBCD021834 Chr06_4505,1464,,,1,1464, Auxin_resp
OsIBCD021943 Chr06_4656,3414,,,1,3414, Auxin_resp B3 Involucrin
OsIBCD022554 Chr07_683,2289,,,1,2289, Auxin_resp B3
OsIBCD027120 Chr08_4127,3252,,,1,3252, Auxin_resp B3
OsIBCD030979 Chr10_2562,1962,,,1,1962, Auxin_resp B3
OsIBCD033006 Chr11_2402,2562,,,1,2562, AUX_IAA Auxin_resp B3
OsIBCD034941 Chr12_2063,2496,,,1,2496, AUX_IAA Auxin_resp B3
OsIBCD035656 Chr12_3153,2700,,,1,2700, 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