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.5NG025900.1.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: 1205aa    MW: 133353 Da    PI: 7.0297
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG025900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.16.9e-23201302199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae++       + +++  ++++ +d++  +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F 
  Pavir.5NG025900.1.p 201 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDSTWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV 288
                          99*****************************954.4444.48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++++l+++++r+
  Pavir.5NG025900.1.p 289 --RDEKQQLLLGIRRA 302
                          ..5688889****997 PP
2Auxin_resp118.26.7e-39327410183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s+F+++YnPras++eFvv+++k++kal+ +++s+GmRf+m+fete+  +rr++Gt++g+sdldpvrW+nS+Wr+L+
  Pavir.5NG025900.1.p 327 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 410
                          79**********************************9*********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.05E-43190330IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.6E-41193316IPR015300DNA-binding pseudobarrel domain
CDDcd100174.00E-19200292No hitNo description
PfamPF023628.4E-21201302IPR003340B3 DNA binding domain
PROSITE profilePS5086312.026201303IPR003340B3 DNA binding domain
SMARTSM010191.2E-22201303IPR003340B3 DNA binding domain
PfamPF065071.2E-33327410IPR010525Auxin response factor
PfamPF023096.9E-1010701156IPR033389AUX/IAA domain
PROSITE profilePS5174527.97510711155IPR000270PB1 domain
SuperFamilySSF542772.06E-710841150No hitNo description
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: 1205 aa     Download sequence    Send to blast
MAYSLVSVRR ARAARQLGQP GWAFAACGGP TGRSHTHGGE HDRMIAGDPG QPATRPAPIE  60
MGLGGEGARR LTSHVIYFPG IAYYFPGEKK PPAINSELWH ACAGPLVSLP PAGSLVVYFP  120
QGHSEQVAAS MQKDVDGHVP SYPNLPSKLI CLLHNVTLHA DPETDEVYAQ MTLQPVTSYG  180
KEALQLSELA LKQPRPQTEF FCKTLTASDT STHGGFSVPR RAAEKIFPPL DFSMQPPAQE  240
IQARDLHDST WTFRHIYRGQ PKRHLLTTGW SLFVSGKRLF AGDSVIFVRD EKQQLLLGIR  300
RANRQPTNIS SSVLSSDSMH IGILAAAAHA AANNSPFTIF YNPRASPTEF VVPFAKYQKA  360
LYGNQISLGM RFRMMFETEE LGTRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE  420
RRNRVSIWEI EPVAAPFFIC PPPFFGSKRP RQLDDESSEM ENLLKRAMPW LGEEICIKDP  480
QTQNTIMPGL SLVQWMNMNM QQNSSFANTA MHSEYLRSLS NPSMQNLGAA DLSRQLCLQN  540
QILQQNSIQF SSPKLPQQMQ PVNELSKATL PLNQLGVSTK QQEQTQDPSN LQRQQQSMNQ  600
LNPLSQSQTN LVQAQVLVQN QMQQQQPPSM TQNQQSSTSQ PQLLPHQQQQ HQQQKLLHQQ  660
QQLLLQQQQL QQQQQNQQQL NKMAAQVPNL AAQQLQLSDQ QLQLQLLQKL QQQQQQSLLS  720
QPAVTLAQLP LIQEQQKLIL DMQQQLSNSQ SLSQQQTMPQ QSTKVPSQTP PPPHMQQEPQ  780
QKVPQKHVGF PDTSHAAIPP PSTSVNAISV AGSPLMANGT THSVLTEEIP SCSTSPSTAN  840
GNHLVQPILG RNQQCGMINT EKVPQSTAPM SIPSSLDAVT AAPRATKELP KLNSNVKQSV  900
MASKLPNPGP VPQNLVNSAP PTDYLETASS ATSVWLSQTD GLLHQGFPMS NFNQQQLFKD  960
VPPETDIQGA DPSNNALFGI NSDGQLGFPM GADGFLSNGI DTSKYQNHIS TDIDGNYRIP  1020
KDGQQEISSS MVSQSFGASD MAFNSIDSAM NDGGFLNRTS WPPAPPLKRM RTFTKVYKRG  1080
AVGRSIDISQ YSGYDELKHA LARMFSIEGQ LEERQRIGWK LVYKDHEDDI LLLGDDPWEE  1140
FVNCVRCIRI LSPQEVQQMS LDGDLGNNIL PNQACSSSDG GNAWRARCDQ NSGNPSNGSY  1200
DQFE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1679043147388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.7910.0callus| 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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG025900.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by auxin under light condition. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025810781.10.0auxin response factor 19-like isoform X1
SwissprotQ6Z2W30.0ARFE_ORYSJ; Auxin response factor 5
TrEMBLA0A2T7DUH40.0A0A2T7DUH4_9POAL; Auxin response factor
STRINGPavir.J00164.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP140935106
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19