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.12G171000.1.p
Common NameGLYMA_12G171000, LOC100812909
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: 800aa    MW: 88732.3 Da    PI: 6.9339
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.12G171000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.14.1e-24162263199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++p++ ae++      ++ ++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F  
  Glyma.12G171000.1.p 162 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKK-QRPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL- 249
                          99****************************8633.345679************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           + +++el+++++r+
  Glyma.12G171000.1.p 250 -RGENGELRLGIRRA 263
                          .4499999****996 PP

2Auxin_resp116.13.1e-38288370182
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                          +a+a+s ks+F+v+Y+Pras+++F v+++k+ k++k++v++G+Rfkm+fe+++s+err+ sG+v+g+sdldp++Wp+SkWr+L
  Glyma.12G171000.1.p 288 VANAISAKSMFHVFYSPRASHADFAVPYQKYIKSIKNPVTIGTRFKMKFEMDESPERRCtSGIVTGMSDLDPYKWPKSKWRCL 370
                          689********************************************************9**********************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.06E-44153274IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.7E-40155273IPR015300DNA-binding pseudobarrel domain
CDDcd100174.68E-23160262No hitNo description
PROSITE profilePS5086313.225162264IPR003340B3 DNA binding domain
SMARTSM010191.7E-24162264IPR003340B3 DNA binding domain
PfamPF023624.7E-22162263IPR003340B3 DNA binding domain
PfamPF065072.2E-32288370IPR010525Auxin response factor
PROSITE profilePS5174516.779664754IPR000270PB1 domain
SuperFamilySSF542772.94E-8666735No 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: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: 800 aa     Download sequence    Send to blast
MEIDLNDAVT SEAEKSASCN GECEKGAALS SPTCSSSGSS STRVSSSYIE LWHACAGPLT  60
SLPKKGNVVV YFPQGHLEQA ASFSPFSPME MPTYDLQPQI FCRVVNIQLL ANKENDEVYT  120
QVTLLPQAEL AGMYMEGKEL EKLGADEEGN ETTPTKSTPH MFCKTLTASD TSTHGGFSVP  180
RRAAEDCFPP LDYKKQRPSQ ELVAKDLHGV EWKFRHIYRG QPRRHLLTTG WSIFVSQKNL  240
VSGDAVLFLR GENGELRLGI RRAARPRNGL PESIVGSQSY YPNFLSSVAN AISAKSMFHV  300
FYSPRASHAD FAVPYQKYIK SIKNPVTIGT RFKMKFEMDE SPERRCTSGI VTGMSDLDPY  360
KWPKSKWRCL MVRWDEDIEI NHQDRVSPWE VDPSASLPPL SIQSSRRLKK LRPGLLAAAP  420
NHLTTVGSSG FMDSEESVRS SKVLQGQENT GFMSLYYGCD TVTKQPEFEI RSPSHPNLAS  480
TGVRKIAAAE FMRVHPSSYA GFTETNMFPR VLQGQEICPF RSLAGKVDLN FGSWGKPNVS  540
YTNYNLHQAT KPNFHSFGPE VVQTAYFPYG DIHKAGQGSS MLCSNPTNFQ REDIPFNTPS  600
IQSGITIPNE QKLQDNISGA ASLGANMRIP NDDNFKGKVN ACKLFGFPLS RETTAQNLQN  660
SSKRSCTKVH KQGSLVGRAI DLSRLSSYND LLIELERLFS MEGLLIDPNK GWRILYTDSE  720
NDIMVVGDDP WHLPFVCSEF CDVVSKIHIH TQEEVEKMTI GMMINDDSQS CLEQAPVMVE  780
ASKSSSVGQP DSSPTVVRM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldx_A1e-1195039322354Auxin response factor 1
4ldx_B1e-1195039322354Auxin 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.12G171000.1.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_006592679.10.0auxin response factor 4 isoform X1
RefseqXP_028194472.10.0auxin response factor 4-like isoform X3
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0B2QTT30.0A0A0B2QTT3_GLYSO; Auxin response factor
TrEMBLI1LTG40.0I1LTG4_SOYBN; Auxin response factor
STRINGGLYMA12G29280.10.0(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
AT5G60450.10.0auxin 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]