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.12G071000.1.p
Common NameGLYMA_12G071000, LOC100783513
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: 793aa    MW: 87731.7 Da    PI: 6.3946
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.12G071000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.94.6e-24166267199
                          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.12G071000.1.p 166 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyK-QQRPSQELVAKDLHGVEWKFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL- 253
                          99****************************963.3445679************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           + +++el+++++r+
  Glyma.12G071000.1.p 254 -RGENGELRLGIRRA 267
                          .4499999****996 PP

2Auxin_resp115.45e-38292374182
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsL 82 
                          +a+a+stks F+v+Y+Pras+++Fvv+++k++k++k++vs+G+Rfkm+fe+++s+err+ sGt +++sdldp+rW +SkWr+L
  Glyma.12G071000.1.p 292 VANAISTKSKFHVFYSPRASHADFVVPYQKYVKSIKNPVSIGTRFKMRFEMDESQERRCsSGTLIATSDLDPYRWAKSKWRCL 374
                          689********************************************************9**********************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.8E-41157279IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.44E-44158277IPR015300DNA-binding pseudobarrel domain
CDDcd100174.59E-23164266No hitNo description
PROSITE profilePS5086313.084166268IPR003340B3 DNA binding domain
SMARTSM010191.5E-24166268IPR003340B3 DNA binding domain
PfamPF023624.8E-22166267IPR003340B3 DNA binding domain
PfamPF065072.2E-32292374IPR010525Auxin response factor
PROSITE profilePS5174521.699664748IPR000270PB1 domain
SuperFamilySSF542774.32E-10667743No 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: 793 aa     Download sequence    Send to blast
MEIDLNHEVT EAEKNAFCDR ECEKGAGAGA GITCWSSSTC SSSSAACVSS SYLELWHACA  60
GPLTSLLKKG NVVVYFPQGH LEQVASFSPF TPLEIPTYDL QPQIFCRVVN VQLLANKEND  120
EVYTQVTLLP QPELEGMYSE GKELEELGAE EDGDERSPTK STPHMFCKTL TASDTSTHGG  180
FSVPRRAAED CFPPLDYKQQ RPSQELVAKD LHGVEWKFRH IYRGQPRRHL LTTGWSIFVS  240
QKNLVSGDAV LFLRGENGEL RLGIRRAVRP RNDLPESVIG SQNCYSNVLS SVANAISTKS  300
KFHVFYSPRA SHADFVVPYQ KYVKSIKNPV SIGTRFKMRF EMDESQERRC SSGTLIATSD  360
LDPYRWAKSK WRCLMVRWDE DIETNHQDRV SPWEIDPSAP LPPLSIQSSP RLKKLRTGLQ  420
VASPSHLITA ARGSGLVGFE ESVRSPKVLQ GQENAGFVSF YYGCDTVTKP PGFEMSSPSH  480
PNLGSAEVRK VSSSELNSVH PFSYAGFVET NRFPRVLQGQ EICSLKSLTG KVDLNLGAWG  540
MPNLSCTTFN LHQATKPNFQ PSLFPYGDIH QAGQASLFCS KSTTFQRENV PFNKPSTQAG  600
IIVNEVGRSD LPNEHKLQDN ISSAANMGVS NDNNVQGKVN ACKLFGFSLS GETTAQNLQN  660
SAKRSCTKVH KQGSLVGRAI DLSRLSGYND LLSELERLFS MEGLLKDPDK GWRILYTDSE  720
NDIMVVGDDP WHEFCDVVSK IHIYTQEEVE KMTIGMISDD THSCLEEAPV IMEASKSSSV  780
GQPDYSPTAV RV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-119363972354Auxin response factor 1
4ldw_A1e-119363972354Auxin response factor 1
4ldw_B1e-119363972354Auxin response factor 1
4ldy_A1e-119363972354Auxin response factor 1
4ldy_B1e-119363972354Auxin 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
PlantRegMapGlyma.12G071000.1.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
GenBankAP0150390.0AP015039.1 Vigna angularis var. angularis DNA, chromosome 6, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006592219.10.0auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLI1LQY70.0I1LQY7_SOYBN; Auxin response factor
STRINGGLYMA12G07560.10.0(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]