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.4NG303000.1.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: 845aa    MW: 93759.3 Da    PI: 6.1746
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4NG303000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3772e-2467168199
                          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.4NG303000.1.p  67 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfTQQPPCQ-ELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 154
                          99*****************************96666675.9************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++ +l+++++r+
  Pavir.4NG303000.1.p 155 -WNDNNQLLLGIRRA 168
                          .7777778***9997 PP
2Auxin_resp120.31.5e-39193276183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaast+s F+++YnPras+seFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdld+vrWpnS+Wrs+k
  Pavir.4NG303000.1.p 193 AAHAASTNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDSVRWPNSHWRSVK 276
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-4852196IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.8E-4358182IPR015300DNA-binding pseudobarrel domain
CDDcd100176.36E-2366167No hitNo description
SMARTSM010192.2E-2567169IPR003340B3 DNA binding domain
PROSITE profilePS5086313.01467169IPR003340B3 DNA binding domain
PfamPF023625.4E-2367168IPR003340B3 DNA binding domain
PfamPF065071.2E-34193276IPR010525Auxin response factor
SuperFamilySSF542771.24E-7703788No hitNo description
PfamPF023091.3E-8709798IPR033389AUX/IAA domain
PROSITE profilePS5174522.918712796IPR000270PB1 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: 845 aa     Download sequence    Send to blast
MESQIPNYPN LPPQLICQLH NVTMHADAET DEVYAQMTLQ PLNPQELKDP YLPAELSSAN  60
NQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFTQ QPPCQELIAK DLHGNEWKFR  120
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDNNQ LLLGIRRANR PQTVMPSSVL  180
SSDSMHIGLL AAAAHAASTN SRFTIFYNPR ASPSEFVIPL AKYVKAVYHT RISVGMRFRM  240
LFETEESSVR RYMGTITGIS DLDSVRWPNS HWRSVKVGWD ESTAGERQPR VSLWEIEPLT  300
TFPMYPSPFP LRLKRPWPTG LPSLHGGKDD DLTNSLMWLR DTANPGFQSL NFGGLGVNPW  360
MQPRLDASFL GLQPDMYQAM ATAAFQDPTK QVSSTILQFQ QPQNIAGRAA PLLSSQILQQ  420
VQPQFQQQPY LQNIPESTIH GQGQPELLKQ QIQRNQSFNE QKPQLQTQQQ QQESQQQSQC  480
LQVPQHQQMQ QQNNMTNYQS VSNALSAFSQ LSSAPQSSPV ALQPILPFSQ AQSFAETTIS  540
SLSPSNATAM QNTLRPFSSE AASHLSMPRP TAVPVADPWS SKRVAVESLL PSRTQVTSQM  600
EQLDSTPPSI PQSSALAPLP GRGCLDQDVN SDPQNHLLFG VSIDSQSLLM QGGIPGLQNG  660
NDSTAIPYST NFLSPSQNDF PLDHTLNSSG CLDDAGYVPC SDNSDQVNRP PATFVKVYKS  720
GTYGRSLDIT RFSSYHELRR ELGRLFGLEG QLEDPMRSGW QLVFVDREED VLLVGDDPWQ  780
EFVSTVSCIK ILSPQEVQQM GKQGLELLSS APARRLGSSC DDYVSRQESR SLSTGIASVG  840
SVEF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-136329794388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.9020.0leaf| 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.4NG303000.1.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
GenBankBT0883180.0BT088318.1 Zea mays full-length cDNA clone ZM_BFc0133F15 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025811094.10.0auxin response factor 17
RefseqXP_025811095.10.0auxin response factor 17
SwissprotQ653U30.0ARFQ_ORYSJ; Auxin response factor 17
TrEMBLA0A3L6RWL60.0A0A3L6RWL6_PANMI; Auxin response factor
STRINGPavir.Db00366.1.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
AT1G30330.10.0auxin 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]