PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Araha.31309s0002.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family ARF
Protein Properties Length: 755aa    MW: 82839.8 Da    PI: 6.7926
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.31309s0002.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3764.2e-24129230199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F
  Araha.31309s0002.1.p 129 FCKTLTASDTSTHGGFSVPRRAAEKVfppldysQQPPA--QELMARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLF 215
                           99*****************************8544444..48*********************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              ++++ +l+++++r+
  Araha.31309s0002.1.p 216 I--WNDKNQLLLGIRRA 230
                           *..7888889****997 PP

2Auxin_resp118.36.2e-39255338183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+ dldp+rW nS+Wrs+k
  Araha.31309s0002.1.p 255 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGICDLDPTRWANSHWRSVK 338
                           79*********************************9789******************************************985 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-48114258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.8E-42122244IPR015300DNA-binding pseudobarrel domain
CDDcd100177.39E-21128229No hitNo description
PfamPF023623.8E-22129230IPR003340B3 DNA binding domain
SMARTSM010191.9E-24129231IPR003340B3 DNA binding domain
PROSITE profilePS5086312.464129231IPR003340B3 DNA binding domain
PfamPF065077.0E-34255338IPR010525Auxin response factor
PfamPF023091.7E-8604704IPR033389AUX/IAA domain
SuperFamilySSF542772.16E-7606690No hitNo description
PROSITE profilePS5174523.537615699IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 755 aa     Download sequence    Send to blast
MRLSSAGFNP QPHEVSGEKR VLNSELWHAC AGPLVSLPPV GSRVVYFPQG HSEQVAASTN  60
KEVDAHIPNY PSLHPQLICQ LHNVTMHADV ETDEVYAQMT LQPLNAQEQK DPYLPAELGV  120
PSRQPTNYFC KTLTASDTST HGGFSVPRRA AEKVFPPLDY SQQPPAQELM ARDLHDNEWK  180
FRHIFRGQPK RHLLTTGWSV FVSAKRLVAG DSVLFIWNDK NQLLLGIRRA NRPQTVMPSS  240
VLSSDSMHLG LLAAAAHAAA TNSRFTIFYN PRASPSEFVI PLAKYVKAVY HTRVSVGMRF  300
RMLFETEESS VRRYMGTITG ICDLDPTRWA NSHWRSVKVG WDESTAGERQ PRVSLWEIEP  360
LTTFPMYPSP FPLRLKRPWP PGLPSFHGIV NFKTCAAVVS AMSQFGSASH SNTSPLQSMT  420
SLCHQQSFSD TNGGNNPISP LHTLLSNFSQ DESSQLLNLT RTNSAMTSSG WPSKRPAVDS  480
SFQHSGAGNN NTQSVLEQLG QSHTSNIPPN AVSLPPFPGG RECSIEQEGS ASDPHSHLLF  540
GVNIDSSSLL MPNGMSNLRS IGIEGGDSTT LPFTSSNFNN DFSGNLAMTT PSSCIDESGF  600
LQSSENLGSE NPQSNTFVKV YKSGSFGRSL DISKFSSYHE LRSELARMFG LEGQLEDPVR  660
SGWQLVFVDR ENDVLLLGDD PWPAFVSSVW CIKILSPQEV QQMGKRGLEL LNSAPSSNNV  720
DKLPSNGNCD DFGNRSDPRN LGNGIASVGG SFNY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1601835947388Auxin response factor 5
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF8. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.31309s0002.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY6697880.0AY669788.1 Arabidopsis thaliana clone C105343 ARF6 (At1g30330) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022012443.10.0auxin response factor 8-like isoform X2
SwissprotQ9ZTX80.0ARFF_ARATH; Auxin response factor 6
TrEMBLA0A3N6UE960.0A0A3N6UE96_BRACR; Auxin response factor
STRINGCagra.1508s0171.1.p0.0(Capsella grandiflora)
STRINGfgenesh2_kg.1__3210__AT1G30330.20.0(Arabidopsis lyrata)
STRINGXP_006306714.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
Publications ? help Back to Top
  1. Liu N, et al.
    Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.
    J. Exp. Bot., 2014. 65(9): p. 2507-20
    [PMID:24723401]
  2. Oh E, et al.
    Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl.
    Elife, 2015.
    [PMID:24867218]
  3. Minato N, et al.
    The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways.
    Sci Rep, 2014. 4: p. 7399
    [PMID:25492247]
  4. Ortega-Amaro MA, et al.
    Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance.
    Front Plant Sci, 2014. 5: p. 782
    [PMID:25653657]
  5. Asahina M,Satoh S
    Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues.
    J. Plant Res., 2015. 128(3): p. 381-8
    [PMID:25736731]
  6. Batista VG,Pinheiro MP,Melo Filho PA,Santos RC,Lima LM
    Temporal and tissue expression of genes involved in buds of earliness cotton cultivar.
    Genet. Mol. Res., 2015. 14(3): p. 7386-94
    [PMID:26214417]
  7. Li P, et al.
    Ca(2+) -regulated and diurnal rhythm-regulated Na(+) /Ca(2+) exchanger AtNCL affects flowering time and auxin signalling in Arabidopsis.
    Plant Cell Environ., 2016. 39(2): p. 377-92
    [PMID:26296956]
  8. Barik S, et al.
    Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species.
    Sci Rep, 2015. 5: p. 14611
    [PMID:26459056]
  9. Luo S, et al.
    Constitutive Expression of OsIAA9 Affects Starch Granules Accumulation and Root Gravitropic Response in Arabidopsis.
    Front Plant Sci, 2015. 6: p. 1156
    [PMID:26734051]
  10. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  11. Zhang GZ, et al.
    Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis.
    Plant Cell Rep., 2017. 36(12): p. 1995-2006
    [PMID:29027578]
  12. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]