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.9NG296900.1.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: 581aa    MW: 63701.7 Da    PI: 8.5926
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG296900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.45.5e-2315116199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f k+lt+sd+++ g +++p+ +ae++         ++ +  t+  +d  g++W++++iyr++++r++lt+GW+ Fv++++L +gD++vF 
  Pavir.9NG296900.1.p  15 FAKTLTQSDANNGGGFSVPRYCAETIfpkldyrADPPVQ--TVLAKDVPGEVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFL 102
                          89****************************996555555..8999********************************************* PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            +++ +el+v+++r+
  Pavir.9NG296900.1.p 103 --RTEHGELCVGIRRA 116
                          ..55999*******97 PP
2Auxin_resp117.79.6e-39171254183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                          aa+ a+ +++FevvY+Prast+eFvvk+++v++a+++++++GmRfkmafetedss+ ++ +Gt+++v+ +dp+rW+nS+Wr+L+
  Pavir.9NG296900.1.p 171 AASLAAGGQPFEVVYYPRASTPEFVVKAASVQNAMRNQWCPGMRFKMAFETEDSSRMSWfMGTIASVQVADPIRWSNSPWRLLQ 254
                          67889999**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.2E-356118IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.76E-2811119IPR015300DNA-binding pseudobarrel domain
CDDcd100171.66E-1914115No hitNo description
PfamPF023624.3E-2115116IPR003340B3 DNA binding domain
SMARTSM010191.0E-2015117IPR003340B3 DNA binding domain
PROSITE profilePS5086312.68915117IPR003340B3 DNA binding domain
PfamPF065079.1E-34171254IPR010525Auxin response factor
PROSITE profilePS5174519.962485563IPR000270PB1 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: 581 aa     Download sequence    Send to blast
VGGDPADARD KLSSFAKTLT QSDANNGGGF SVPRYCAETI FPKLDYRADP PVQTVLAKDV  60
PGEVWKFRHI YRGTPRRHLL TTGWSTFVNQ KKLVAGDSIV FLRTEHGELC VGIRRAKRVS  120
CGGMECMSGW NAPGYGAFSA FLKDEESKMM KGPGGYMRGR RKVKIADVVE AASLAAGGQP  180
FEVVYYPRAS TPEFVVKAAS VQNAMRNQWC PGMRFKMAFE TEDSSRMSWF MGTIASVQVA  240
DPIRWSNSPW RLLQVTWDEP DLLQNVKCVN PWLVELVSSI PPIHLGPFSP PRKKLRVPQH  300
PDFPFDSQLL NPIFHGNPLG PSNSPICCFP DNAPAGIQVA RHAQFGLPLT DHQLNKLHLG  360
LFHGGGFNRL DAITPQSRIP KGFMITSAPV KETVSCLLTI GTPQGTEKSD DRKKPHIMLF  420
GKPILTEQQM NSGGSRETFS PEVTGNSSSD GNAQKTGNVS DGSGSSICIG FPSQGRKASD  480
LGLEVGHCKV FMESEDVGRT IDLSVFGSYE ELYGQLADMF GIEKAEIMSH LRYRDAAGAV  540
KHTGEEPFSD FMKVARRLTI TEGGVGRLQK PLIEYMVERA *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-5615279158392Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.211720.0callus| 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.9NG296900.1.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_025795868.10.0auxin response factor 22-like
SwissprotQ9AV470.0ARFV_ORYSJ; Auxin response factor 22
TrEMBLA0A2S3ILF00.0A0A2S3ILF0_9POAL; Auxin response factor
STRINGPavir.Ia01695.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51637152
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]