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.3KG544300.1.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: 895aa    MW: 98471.3 Da    PI: 6.0852
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG544300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.52.6e-23129230199
                          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+++F 
  Pavir.3KG544300.1.p 129 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPVQ--ELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSIIFI 216
                          99*****************************85545444..8************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++ +l+++++r+
  Pavir.3KG544300.1.p 217 --WNDNNQLLLGIRRA 230
                          ..7777778***9997 PP
2Auxin_resp115.54.6e-38255338183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+t+s F+++YnPras+seFv++++k++k ++ ++vsvGmRf+m fete+ss rr++Gt++g+sdld+ rWpnS+Wrs+k
  Pavir.3KG544300.1.p 255 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKVVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDSERWPNSHWRSVK 338
                          79********************************99789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.28E-47117258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-42121244IPR015300DNA-binding pseudobarrel domain
CDDcd100171.98E-21128229No hitNo description
PROSITE profilePS5086312.506129231IPR003340B3 DNA binding domain
PfamPF023621.8E-21129230IPR003340B3 DNA binding domain
SMARTSM010191.0E-24129231IPR003340B3 DNA binding domain
PfamPF065073.2E-33255338IPR010525Auxin response factor
PfamPF023091.1E-7758846IPR033389AUX/IAA domain
SuperFamilySSF542779.81E-7760836No hitNo description
PROSITE profilePS5174523.182761845IPR000270PB1 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: 895 aa     Download sequence    Send to blast
MNLSPSKMAE PSPESDGEQR CLNSELWHAC AGPLVSLPMV GSRVVYFPQG HSEQVAASTN  60
KEVDAQIPNY PNLPPQLICQ LHNVTMHADV ETEEVYAQMT LQPLSPEEQK EPFLPIELGA  120
GSKQPTNYFC KTLTASDTST HGGFSVPRRA AEKVFPPLDF SQQPPVQELI ARDLHDNEWK  180
FRHIFRGQPK RHLLTTGWSV FVSAKRLVAG DSIIFIWNDN NQLLLGIRRA NRPQTVMPSS  240
VLSSDSMHIG LLAAAAHAAA TNSRFTIFYN PRASPSEFVI PLAKYVKVVY HTRVSVGMRF  300
RMLFETEESS VRRYMGTITG ISDLDSERWP NSHWRSVKVG WDESTAGDKQ PRVSLWEIEP  360
LTTFPMYPTA FPLRLKRPWA SGLPMFNGGR SDEFARYSSL MWLRDGSRGS QSLNFQGLGV  420
SPWLQPRIDY PLLGLKPDTY QQMAAAALEE IRGGDHLKQT SSLLAAQQTQ NLNGGLDPLY  480
GNPVLQQMQF QSQQSALQAV QQGYCQNTGN SGFIQSQLQQ LQLQKQQEPP PQQQTQQVLQ  540
QQSHQDMQQR LSSSCHDITN VASSMSEAVS ASQSQSSLLP GSSFYQQNIF EGNSGPGLHL  600
HNSFHNFSSQ EASNLLNLPR SGQSMASEGW PSKRLAVEPL ANLEAQSVQH KLEKVSHQSN  660
VSHISGTLAP LSARDGSSAQ ALSTNAQSHL LSSSFAIHDG MTTVRGDGVG SGTDAITIAS  720
LRYSDVNLLP ENSLATSSCL GESGTFNSLN DVCGVNPSQG GTFVKVYKSG SLGRSLDITR  780
FSSYYELRSE LERLFGLEGQ LEDPVRSGWQ LVFVDRENDI LLVGDDPWQE FVNSVWCIKI  840
LSPQDVQQMV RGGDGLLSTP GATMLQGNAC DDYSASHDMQ NLTGSIAPVV PLDY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1631435943388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.23090.0callus| 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.3KG544300.1.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
GenBankKJ7279630.0KJ727963.1 Zea mays clone pUT6075 ARF transcription factor (ARF34) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025806869.10.0auxin response factor 25-like
SwissprotQ2QM840.0ARFY_ORYSJ; Auxin response factor 25
TrEMBLA0A3L6T0800.0A0A3L6T080_PANMI; Auxin response factor
STRINGPavir.Ca02838.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP127122934
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin 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. Gao S, et al.
    CYTOKININ OXIDASE/DEHYDROGENASE4 Integrates Cytokinin and Auxin Signaling to Control Rice Crown Root Formation.
    Plant Physiol., 2014. 165(3): p. 1035-1046
    [PMID:24808099]