PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os01g70270.3
Common NameARF2, ARF4, LOC4326957, Os01g0927600, OSJNBa0093F16.35
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family ARF
Protein Properties Length: 809aa    MW: 90854.7 Da    PI: 6.4775
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g70270.3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.64.1e-22129230199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d+++  W++++i+r++++r++l++GW+ Fv++++L +gD ++F   +
  LOC_Os01g70270.3 129 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHSMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--R 217
                       99*****************************7555544..58************************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                        +++el+v+v+r+
  LOC_Os01g70270.3 218 GENGELRVGVRRA 230
                       49999*****996 PP

2Auxin_resp113.61.9e-37255336183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       a+ha++tks+F+v+Y+Pr+s+seF+++++++++++k+++svGmRf+m+fe+e+++e+r++Gt++g ++ldp  Wp+S WrsLk
  LOC_Os01g70270.3 255 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSVGMRFRMRFEGEEAPEQRFTGTIIGSENLDP-VWPESSWRSLK 336
                       89*********************************************************************.9********96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.63E-40121258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.3E-39122244IPR015300DNA-binding pseudobarrel domain
CDDcd100175.36E-19127229No hitNo description
PROSITE profilePS5086311.265129231IPR003340B3 DNA binding domain
SMARTSM010191.5E-21129231IPR003340B3 DNA binding domain
PfamPF023628.1E-20129230IPR003340B3 DNA binding domain
PfamPF065075.9E-34255336IPR010525Auxin response factor
PfamPF023098.5E-7673728IPR033389AUX/IAA domain
SuperFamilySSF542774.51E-13688769No hitNo description
PROSITE profilePS5174526.238692785IPR000270PB1 domain
Gene3DG3DSA:3.10.20.2409.8E-4710765No hitNo description
PfamPF023092.6E-8734777IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009049anatomyinflorescence
PO:0001083developmental stageinflorescence development stage
PO:0007006developmental stageIL.00 inflorescence just visible stage
Sequence ? help Back to Top
Protein Sequence    Length: 809 aa     Download sequence    Send to blast
MPPAAMAPPP PPQGSSTGDP LYDELWHACA GPLVTVPRVG DLVFYFPQGH IEQVEASMNQ  60
VADSQMRLYD LPSKLLCRVL NVELKAEQDT DEVYAQVMLM PEPEQNEMAV EKTTPTSGPV  120
QARPPVRSFC KTLTASDTST HGGFSVLRRH ADECLPPLDM TQSPPTQELV AKDLHSMDWR  180
FRHIFRGQPR RHLLQSGWSV FVSSKRLVAG DAFIFLRGEN GELRVGVRRA MRQLSNVPSS  240
VISSQSMHLG VLATAWHAIN TKSMFTVYYK PRTSPSEFII PYDQYMESVK NNYSVGMRFR  300
MRFEGEEAPE QRFTGTIIGS ENLDPVWPES SWRSLKVRWD EPSTIPRPDR VSPWKIEPAS  360
SPPVNPLPLS RVKRPRPNAP PASPESPILT KEAATKVDTD PAQAQRSQNS TVLQGQEQMT  420
LRSNLTESND SDVTAHKPMM WSPSPNAAKA HPLTFQQRPP MDNWMQLGRR ETDFKDVRSG  480
SQSFGDSPGF FMQNFDEAPN RLTSFKNQFQ DQGSARHFSD PYYYVSPQPS LTVESSTQMH  540
TDSKELHFWN GQSTVYGNSR DRPQNFRFEQ NSSSWLNQSF ARPEQPRVIR PHASIAPVEL  600
EKTEGSGFKI FGFKVDTTNA PNNHLSSPMA ATHEPMLQTP SSLNQLQPVQ TDCIPEVSVS  660
TAGTATENEK SGQQAQQSSK DVQSKTQVAS TRSCTKVHKQ GVALGRSVDL SKFSNYDELK  720
AELDKMFEFD GELVSSNKNW QIVYTDNEGD MMLVGDDPWE EFCSIVRKIY IYTKEEVQKM  780
NSKSNAPRKD DSSENEKGHL PMPNKSDN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1701436112357Auxin response factor 1
4ldw_A1e-1701436112357Auxin response factor 1
4ldw_B1e-1701436112357Auxin response factor 1
4ldx_A1e-1701436112357Auxin response factor 1
4ldx_B1e-1701436112357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1372376KRPRP
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.261440.0callus| flower| leaf| panicle| root| seed| stem| vegetative meristem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329823320.0
Expression AtlasQ5JK20-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g70270.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g70270
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0723090.0AK072309.1 Oryza sativa Japonica Group cDNA clone:J023022C23, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015650953.10.0PREDICTED: auxin response factor 4
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLA0A0E0N7330.0A0A0E0N733_ORYRU; Auxin response factor
STRINGLOC_Os01g70270.10.0(Oryza sativa Japonica Group)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Sato Y, et al.
    Auxin response factor family in rice.
    Genes Genet. Syst., 2001. 76(6): p. 373-80
    [PMID:11922106]
  2. Wang D, et al.
    Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa).
    Gene, 2007. 394(1-2): p. 13-24
    [PMID:17408882]