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 Pavir.7NG435200.1.p
Organism
Panicum virgatum
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; Panicinae; Panicum
Family ARF
Protein Properties Length: 563aa    MW: 62731 Da    PI: 7.1203
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG435200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.11.5e-22131231198
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d +  +W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F 
  Pavir.7NG435200.1.p 131 FCKTLTASDTSTHGGFSVPRRAAERVfppldftQQPPAQ--ELIARDIHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI 218
                          99***********************9*****86555544..8************************************************ PP

                          E-SSSEE..EEEEE- CS
                   B3  84 ldgrsefelvvkvfr 98 
                            ++++ +l+++++ 
  Pavir.7NG435200.1.p 219 --WNEKNQLLLGIRH 231
                          ..8888889999986 PP
2Auxin_resp113.42.2e-37257340183
           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
  Pavir.7NG435200.1.p 257 AAHAAATNSRFTIFYNPRASPSEFVIPLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITEVSDADPVRWPSSYWRSVK 340
                          79*******************************986599******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-48116260IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.8E-41123246IPR015300DNA-binding pseudobarrel domain
CDDcd100173.66E-21130223No hitNo description
PfamPF023621.2E-20131232IPR003340B3 DNA binding domain
PROSITE profilePS5086312.012131233IPR003340B3 DNA binding domain
SMARTSM010198.3E-23131233IPR003340B3 DNA binding domain
PfamPF065079.1E-33257340IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 563 aa     Download sequence    Send to blast
MSSSSAASIG QTPPPPPDEE KKCLNSELWH ACAGPLVCLP TVGTRVVYFP QGHSEQVAAS  60
TNKEVDGHIP NYPNLPPQLI CQLHDVTMHA DAETDEVYAQ MTLQPLNPQE QNDAYLPAEM  120
GIMSKQPTNY FCKTLTASDT STHGGFSVPR RAAERVFPPL DFTQQPPAQE LIARDIHDVE  180
WKFRHIFRGQ PKRHLLTTGW SVFVSAKRLV AGDSVLFIWN EKNQLLLGIR HASRPQTVMP  240
SSVLSSDSMH IGLLAAAAHA AATNSRFTIF YNPRASPSEF VIPLSKYIKA VFHTRISVGM  300
RFRMLFETEE SSVRRYMGTI TEVSDADPVR WPSSYWRSVK VGWDESTAGE RPPRVSLWEI  360
EPLTTFPMYP SLFPLRVKHP WYSGVAALHD DSNALMWLRG VAGEGGFQSL NFQSPGIGSW  420
GQQRLHPSLL SNDHDQYQAV VAAAAASQSG GYLKQQFLHL QQPMQSPQEQ CNLNLLLQQQ  480
IMQQASQQQL VSPDSQNIQS VLSPSSIQQQ LHQLQQMQHA HNDQKQKIQP DQPYQVPSSA  540
VLPSPTSLPS HLREKFGSLI LM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1642036147388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.56260.0callus| leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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
PlantRegMapPavir.7NG435200.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001348616.10.0uncharacterized protein LOC100382863
SwissprotQ0J9510.0ARFL_ORYSJ; Auxin response factor 12
SwissprotQ258Y50.0ARFL_ORYSI; Auxin response factor 12
TrEMBLA0A2T7D1J30.0A0A2T7D1J3_9POAL; Auxin response factor
STRINGPavir.Ga00205.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP58503039
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.20.0auxin response factor 8
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]