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 Glyma.13G328000.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family ARF
Protein Properties Length: 621aa    MW: 68962.7 Da    PI: 6.4587
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.13G328000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.41.3e-18161240175
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 
                          f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L 
  Glyma.13G328000.1.p 161 FCKTLTASDTSTHGGFSVPRRAAEDCfprldyK-QQRPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLV 240
                          99****************************963.3445679**************************************96 PP

2Auxin_resp119.72.3e-39282364182
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                          +a+a+s ks+F+v+Y+Pras+++Fvv+++k+ k++k++v++G+Rfkm+fe+++s+err+ sG+v+g+sdldp++Wp+SkWr+L
  Glyma.13G328000.1.p 282 VANAISAKSMFHVFYSPRASHADFVVPYQKYIKSIKNPVTIGTRFKMKFEMDESPERRCtSGIVTGMSDLDPYKWPKSKWRCL 364
                          689********************************************************9**********************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-37153262IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.0E-32154267IPR015300DNA-binding pseudobarrel domain
CDDcd100172.04E-19159256No hitNo description
PfamPF023621.1E-16161240IPR003340B3 DNA binding domain
SMARTSM010191.6E-15161258IPR003340B3 DNA binding domain
PfamPF065071.4E-33282364IPR010525Auxin response factor
PfamPF023095.2E-7482574IPR033389AUX/IAA domain
PROSITE profilePS5174521.035491573IPR000270PB1 domain
SuperFamilySSF542773.38E-10494570No hitNo description
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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 621 aa     Download sequence    Send to blast
MEIDLNDDAV TSEAEKSASC NEECEKGAAF ALSSSTCSSS GSSSARVSSS YLELWHACAG  60
PLTSLPKKGN VVVYFPQGHL EQASSFSPFS PMEMPTYDLQ PQIFSRVVNI QLLANKENDE  120
VYTQVTLLPR AEYLEGKELE ELGTDEEGNE ATPTKSTPHM FCKTLTASDT STHGGFSVPR  180
RAAEDCFPRL DYKQQRPSQE LVAKDLHGVE WKFRHIYRGQ PRRHLLTTGW SIFVSQKNLV  240
SEMQGENGEL RLGIRRAARP RNGLPESIVG SQSYYPNFLS SVANAISAKS MFHVFYSPRA  300
SHADFVVPYQ KYIKSIKNPV TIGTRFKMKF EMDESPERRC TSGIVTGMSD LDPYKWPKSK  360
WRCLMATKPS FHSLGPEVIQ TAYFPYGDIH NAGQGSSILC SKPTNFQREN IPFNTPSTQS  420
GIMRNEVGRS DITIPNEQKL QDNISGTASL GANMRIPKDD NFKGQVKACK LFGISLSGET  480
TAQNLQNSAK RSCTKVHKQG SLVGRAIDLS RLSSYNDLLI ELERLFSMEG LLIDPNKGWR  540
ILYTDSENDI MVVGDDPWHE FCDVVSKIHI HTQDEVEKMT IGMMINDDTQ SCLEQAPVTM  600
EASKSSSVGQ PDSSPTVVRM *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1025336422331Auxin response factor 1
4ldw_A1e-1025336422331Auxin response factor 1
4ldw_B1e-1025336422331Auxin response factor 1
4ldx_A1e-1025336422331Auxin response factor 1
4ldx_B1e-1025336422331Auxin response factor 1
4ldy_A1e-1025336422331Auxin response factor 1
4ldy_B1e-1025336422331Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.247370.0cotyledon| epicotyl| leaf
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
PlantRegMapGlyma.13G328000.1.p
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_014621785.10.0LOW QUALITY PROTEIN: auxin response factor 4-like
RefseqXP_028190393.10.0auxin response factor 4-like isoform X1
RefseqXP_028190394.10.0auxin response factor 4-like isoform X2
SwissprotQ9ZTX91e-171ARFD_ARATH; Auxin response factor 4
TrEMBLA0A368UHB30.0A0A368UHB3_SOYBN; Auxin response factor
STRINGGLYMA13G40310.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
Representative plantOGRP10049811
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.11e-160auxin 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]