PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Lj3g3v1059090.2
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family ARF
Protein Properties Length: 692aa    MW: 76241.1 Da    PI: 7.7725
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj3g3v1059090.2genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.84.9e-24156253199
                      EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                      f+k+lt sd++++g +++p++ ae++   ++ + s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +++el
  Lj3g3v1059090.2 156 FCKTLTASDTSTHGGFSVPRRAAEDCfpPLQRP-SQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKKLVSGDAVLFL--RGENGEL 246
                      99*************************955544.569************************************************..4499999 PP

                      EEEEE-S CS
               B3  93 vvkvfrk 99 
                      +++++r+
  Lj3g3v1059090.2 247 RLGIRRA 253
                      ****996 PP
2Auxin_resp101.79.6e-34278369182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl..........sGtvvgvsdldpvrWpnSkWrsL 82 
                      +a+a+s +s+F+v+Y+Pras+++Fvv+++k+++++k++v+vG+Rfkm+f++++s+err           sG+v+g+sdldp++Wp+SkWr+L
  Lj3g3v1059090.2 278 VANAISARSMFHVFYSPRASHADFVVPYHKYVRSIKNPVTVGTRFKMKFDMDESPERRSttavtinrcsSGIVTGMSDLDPYKWPKSKWRCL 369
                      689*****************************************************985444444444679********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-41148263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.8E-38149263IPR015300DNA-binding pseudobarrel domain
CDDcd100172.01E-23154252No hitNo description
PfamPF023622.6E-22156253IPR003340B3 DNA binding domain
SMARTSM010191.5E-24156254IPR003340B3 DNA binding domain
PROSITE profilePS5086313.324156254IPR003340B3 DNA binding domain
PfamPF065072.9E-28278369IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 692 aa     Download sequence    Send to blast
MEIDLNDAVT EVDKNAYCNG DCENCASCVC SGSSSAIVSS SYLELWHACA GPLTSLPKKG  60
NVVVYFPQGH LEQAASFSPF SPLDVPTYDL HPQIFCKVAN VQLLANKEND EVYTQVTLLP  120
QAELEGIYLE GKELEGVGED VEGNGKTPAK STPHMFCKTL TASDTSTHGG FSVPRRAAED  180
CFPPLQRPSQ ELVAKDLHGV EWKFRHIYRG QPRRHLLTTG WSIFVSQKKL VSGDAVLFLR  240
GENGELRLGI RRAARPRNGL PESIVGNQSC YPNFLSSVAN AISARSMFHV FYSPRASHAD  300
FVVPYHKYVR SIKNPVTVGT RFKMKFDMDE SPERRSTTAV TINRCSSGIV TGMSDLDPYK  360
WPKSKWRCLM VRWDEIVETN HQDRVSPWEV DPSASLSPLS IQASRRLKKP RTDLEADSPN  420
HLITGSATGG SGFMGFEESV RSPKVLQGQE NTSFMSLYYG CDTVTKKPEF DIKSPSQPNL  480
ASTGVRKITA AAEVMRVHPF NYAGFTETNR LPRVLQGQEI FPLSSLTGKV DLSLGGWGNP  540
HVSCTNYNLH QATKPSFHSL RPELLQTAYF PFGDIHKAGQ GFSMLCSKPT NFQRENVAFN  600
APSTQSGIMR SEVGLSDLTI PNEQKLQDNI SGTAASLGAN IRILNDDNFD GKVNACKLFG  660
FPLSGESTSQ NLQNTAKRSC TKVSDDSNRV IL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-114253972359Auxin response factor 1
4ldw_A1e-114253972359Auxin response factor 1
4ldw_B1e-114253972359Auxin response factor 1
4ldx_A1e-114263973359Auxin response factor 1
4ldx_B1e-114263973359Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj3g3v1059090.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFJ6172710.0FJ617271.1 Lotus japonicus auxin response factor 4 (ARF4) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017425708.10.0PREDICTED: auxin response factor 4-like isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLD3GBU80.0D3GBU8_LOTJA; Auxin response factor
STRINGGLYMA12G29280.10.0(Glycine max)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. 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]