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 Seita.3G020000.2.p
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family ARF
Protein Properties Length: 816aa    MW: 90792.8 Da    PI: 6.2861
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.3G020000.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.26.6e-23133234199
                         EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                         f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  Seita.3G020000.2.p 133 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 220
                         99***********************9*****86555544..8************************************************. PP

                         -SSSEE..EEEEE-S CS
                  B3  85 dgrsefelvvkvfrk 99 
                          ++++ +l+++++r+
  Seita.3G020000.2.p 221 -WNEKNQLLLGIRRA 234
                         .8899999****997 PP
2Auxin_resp112.63.7e-37259342183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         aahaa+t+s F+++YnPras+seFv++++k+ ka+  +++svGmRf+m fete+ss rr++Gt++ vsd+dpvrWp S Wrs+k
  Seita.3G020000.2.p 259 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWPSSYWRSVK 342
                         79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-47118262IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.6E-41125248IPR015300DNA-binding pseudobarrel domain
CDDcd100174.01E-21132233No hitNo description
PfamPF023625.1E-21133234IPR003340B3 DNA binding domain
PROSITE profilePS5086312.308133235IPR003340B3 DNA binding domain
SMARTSM010198.1E-24133235IPR003340B3 DNA binding domain
PfamPF065071.5E-32259342IPR010525Auxin response factor
PfamPF023091.8E-7710800IPR033389AUX/IAA domain
SuperFamilySSF542771.31E-7710791No hitNo description
PROSITE profilePS5174524.037716800IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 816 aa     Download sequence    Send to blast
MSSSSAASIG QPPPPAAPPE EEKKCLNSEL WHACAGPLVC LPTVGTRVIY FPQGHSEQVA  60
ASTNKEVDGH IPNYPNLPPQ LICQLHDVTM HADVETDEVY AQMTLQPLNP QEQNDAYLPA  120
EMGIMSKQPT NYFCKTLTAS DTSTHGGFSV PRRAAERVFP PLDFTQQPPA QELIARDIHD  180
VEWKFRHIFR GQPKRHLLTT GWSVFVSAKR LVAGDSVLFI WNEKNQLLLG IRRASQPQTV  240
MPSSVLSSDS MHIGLLAAAA HAAATNSRFT IFYNPRASPS EFVIPLSKYI KAVFHTRISV  300
GMRFRMLFET EESSVRRYMG TITEVSDADP VRWPSSYWRS VKVGWDESTA GERPPRVSLW  360
EIEPLTTFPM YPSLFPLRVK HPWYSGVAAL HDDSNALMWL RGVAGEGGFQ SFNFQSPGIG  420
SWGQQRLHPS LLSNDHDQYQ AVVAAAAASQ SGGYLKQQFL HLQQPMQSPQ EQCNLNPLLQ  480
QQIMQQASQQ QLVSPDSQNI QSVLSPSAIQ QQLHQLQQMQ HAHNDQKQKI QPDQPYQVPT  540
SAVLPSPTSL PSHLREKFGF SDPNVNSSSF ISSSSNENML ESNFLQGSSK CVDLSRFNQP  600
TVSEQQQQQQ AWKQKFMGSQ SMSFGGSVSL NSPTSKDGSV DNKVGRDVQN QSLFSPQVDN  660
SSLLYNMVPN LTSNVVDNNI STIPSGSTYL QNPMYGCLDD SSGLLQNTGE NDPTTRTFVK  720
VYKSGSVGRS LDITRFSNYA ELREELGQMF GIKGQLDDPD RSGWQLVFVD RENDVLLLGD  780
DPWESFVNSV WYIKILSPED VHKMGKQGND PRYLS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1602236347388Auxin response factor 5
Search in ModeBase
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).
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.3G020000.2.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
GenBankAK0714550.0AK071455.1 Oryza sativa Japonica Group cDNA clone:J023093B04, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004960120.10.0auxin response factor 12
RefseqXP_022680824.10.0auxin response factor 12
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
SwissprotQ258Y50.0ARFL_ORYSI; Auxin response factor 12
TrEMBLA0A368QAC80.0A0A368QAC8_SETIT; Auxin response factor
STRINGPavir.Ga00205.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Qi Y, et al.
    OsARF12, a transcription activator on auxin response gene, regulates root elongation and affects iron accumulation in rice (Oryza sativa).
    New Phytol., 2012. 193(1): p. 109-20
    [PMID:21973088]
  3. Shen WJ,Ruan XL,Li XS,Zhao Q,Li HP
    RNA silencing suppressor Pns11 of rice gall dwarf virus induces virus-like symptoms in transgenic rice.
    Arch. Virol., 2012. 157(8): p. 1531-9
    [PMID:22592958]
  4. Wang S, et al.
    Auxin response factor (OsARF12), a novel regulator for phosphate homeostasis in rice (Oryza sativa).
    New Phytol., 2014. 201(1): p. 91-103
    [PMID:24111723]
  5. Fan J, et al.
    Infection of Ustilaginoidea virens intercepts rice seed formation but activates grain-filling-related genes.
    J Integr Plant Biol, 2015. 57(6): p. 577-90
    [PMID:25319482]