Plant Transcription factor database - Universität Potsdam
version: 3.0

Populus trichocarpa 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 37 gene models in this family



Gene modelDescriptionDomains
179307 gw1.I.7907.1 Auxin_resp B3
179921 gw1.I.8521.1 AUX_IAA Auxin_resp B3
198791 gw1.IV.3880.1 Auxin_resp B3
205407 gw1.V.808.1 Auxin_resp B3
243681 gw1.XIV.424.1 Auxin_resp B3
245007 gw1.XIV.1750.1 AUX_IAA Auxin_resp B3
245984 gw1.XIV.2727.1 Auxin_resp B3
282057 gw1.28.631.1 Auxin_resp B3
282058 gw1.28.632.1 Auxin_resp B3
289219 gw1.44.432.1 Auxin_resp B3
409923 gw1.II.1258.1 AUX_IAA Auxin_resp B3
411997 gw1.II.3332.1 Auxin_resp B3
414037 gw1.III.1140.1 Auxin_resp B3
417993 gw1.VI.2366.1 Auxin_resp B3
575450 eugene3.00150845 Auxin_resp B3
583448 eugene3.150910001 Auxin_resp
589324 eugene3.00280060 Auxin_resp B3
595068 eugene3.00660262 Auxin_resp B3
596587 eugene3.08470003 Auxin_resp
642997 grail3.0003020302 Auxin_resp B3
652033 grail3.0002064402 Auxin_resp B3
713904 estExt_Genewise1_v1.C_LG_IV2935 Auxin_resp B3
727995 estExt_Genewise1_v1.C_LG_XI2869 Auxin_resp B3
753199 fgenesh4_pg.C_LG_I002802 Auxin_resp B3
765287 fgenesh4_pg.C_LG_VIII000301 Auxin_resp B3
768360 fgenesh4_pg.C_LG_IX001411 Auxin_resp B3
768387 fgenesh4_pg.C_LG_IX001438 Auxin_resp B3
778677 fgenesh4_pg.C_LG_XVIII000045 Auxin_resp B3
786899 fgenesh4_pg.C_scaffold_187000006 Auxin_resp B3
818500 estExt_fgenesh4_pg.C_LG_V0901 Auxin_resp
828321 estExt_fgenesh4_pg.C_1500013 Auxin_resp B3
828493 estExt_fgenesh4_pg.C_1640064 Auxin_resp B3
830919 estExt_fgenesh4_pm.C_LG_III0550 Auxin_resp B3
833860 estExt_fgenesh4_pm.C_LG_X0888 Auxin_resp B3
834367 estExt_fgenesh4_pm.C_LG_XII0386 Auxin_resp B3
835516 estExt_fgenesh4_pm.C_LG_XVI0323 Auxin_resp B3
836829 estExt_fgenesh4_pm.C_860029 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