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.1NG060500.1.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: 907aa    MW: 99557.7 Da    PI: 5.8626
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG060500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.81.2e-24137238199
                          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++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  Pavir.1NG060500.1.p 137 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfNQQPP-TQELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 224
                          99*****************************844443.459************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++ +l+++++r+
  Pavir.1NG060500.1.p 225 -WNDSNQLLLGIRRA 238
                          .7878889***9997 PP
2Auxin_resp1193.7e-39263346183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaast+s F+++YnPras+ eFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdldpvrWpnS+Wrs+k
  Pavir.1NG060500.1.p 263 AAHAASTNSRFTIFYNPRASPCEFVIPLSKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVK 346
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-48122266IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.2E-43128252IPR015300DNA-binding pseudobarrel domain
CDDcd100171.98E-22136237No hitNo description
PROSITE profilePS5086313.253137239IPR003340B3 DNA binding domain
PfamPF023623.6E-23137238IPR003340B3 DNA binding domain
SMARTSM010193.2E-25137239IPR003340B3 DNA binding domain
PfamPF065075.9E-34263346IPR010525Auxin response factor
SuperFamilySSF542773.6E-8764850No hitNo description
PfamPF023091.2E-7766859IPR033389AUX/IAA domain
PROSITE profilePS5174525.028774858IPR000270PB1 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: 907 aa     Download sequence    Send to blast
MMKLSPSAAG GLQDQPASPE GTEAEENKCL NSELWHACAG PLVSLPAVGS RVVYFPQGHG  60
EQVAASTNKE MESQIPNYPS LPPQLICQLH NVTMHADAET DEVYAQMTLQ PLSPQELKDP  120
FLPAELGSAS KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFNQ QPPTQELIAK  180
DLHGNEWKFR HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDSNQ LLLGIRRANR  240
PQTVMPSSVL SSDSMHIGLL AAAAHAASTN SRFTIFYNPR ASPCEFVIPL SKYVKAVYHT  300
RISVGMRFRM LFETEESSVR RYMGTITGIS DLDPVRWPNS HWRSVKVGWD ESTAGEKQPR  360
VSLWEIEPLT TLPMYPSPFA LGLKRPWHTG LPSLYGGRDD GLTSSLMWLR DGANPSFQSL  420
NFGGLGTSPW MQPRMDNSLL GLQSDMYQTI AAAALQGTTK QIPPSVMQFQ QPQNIVGRSA  480
LLSNQIMQQV QPQFQQIYSQ NINDNTVQGH THAEYLQHQL QRSQSFNEQK PQLHPQQQHQ  540
ESQQQQECKQ TPQNQQLHCL PNALSAFSQL SSGTQSPSST LPTVPAFSNQ NFPDTNVSSL  600
APYGGSSMQG MLGQLPSEAA SNLPCVARTT PLPISDPWSS KRVAVESVNP SRPHAVSTQI  660
EQLDMTPCNL PQNSALAPLP GRGCLVDQDG SSDPQNHLLF GVNIDSQSLL MQGGIPGHQN  720
DNVSSTIPYS TSNFPSPSQD DFPLNQPLPS AGCLDESGYV PCAENSEQAN QQFSTFVKVY  780
KSGTVGRLLD ITRFSSYDEL RSEVGRLFGL EGQLEDPLRS GWQLVFVDGE DDVLLVGDDP  840
WQEFVNSVSC IKILSPEEVQ QMGKQGIQLL SSAPARRISN GCDSYVSRQE SRSLSTGMAP  900
VGSVEF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1613036751388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.127100.0callus| 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.1NG060500.1.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
RefseqXP_025823935.10.0auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A2S3GLJ50.0A0A2S3GLJ5_9POAL; Auxin response factor
STRINGPavir.Aa03303.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20123685
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]