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.4NG315300.1.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: 1103aa    MW: 122728 Da    PI: 6.7178
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4NG315300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.36.2e-2397198199
                          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.4NG315300.1.p  97 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDSTWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV 184
                          99*****************************954.4444.48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++++l+++++r+
  Pavir.4NG315300.1.p 185 --RDEKQQLLLGIRRA 198
                          ..5688889****997 PP
2Auxin_resp118.55.3e-39223306183
           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.4NG315300.1.p 223 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYrNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 306
                          79*********************************989********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.66E-4386226IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-4189212IPR015300DNA-binding pseudobarrel domain
CDDcd100173.51E-1996188No hitNo description
SMARTSM010191.2E-2297199IPR003340B3 DNA binding domain
PROSITE profilePS5086312.02697199IPR003340B3 DNA binding domain
PfamPF023627.4E-2197198IPR003340B3 DNA binding domain
PfamPF065074.8E-34223306IPR010525Auxin response factor
PfamPF023095.3E-109671054IPR033389AUX/IAA domain
PROSITE profilePS5174527.9759691053IPR000270PB1 domain
SuperFamilySSF542771.77E-79811048No 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: 1103 aa     Download sequence    Send to blast
MGHHMFGCGK DSLSECKYRD SEVAASMQKD VDGHVPSYPN LPSKLICLLH NVTLHADPET  60
DEVYAQMTLQ PVTSYGKEAL QLSELALKQP RPQTEFFCKT LTASDTSTHG GFSVPRRAAE  120
KIFPPLDFSM QPPAQEIQAR DLHDSTWTFR HIYRGQPKRH LLTTGWSLFV SGKRLFAGDS  180
VIFVRDEKQQ LLLGIRRANR QPTNISSSVL SSDSMHIGIL AAAAHAAANN SPFTIFYNPR  240
ASPTEFVVPF AKYQKALYRN QISLGMRFRM MFETEELGTR RYMGTITGIS DLDPVRWKNS  300
QWRNLQVGWD ESAAGERRNR VSIWEIEPVA APFFICPPPF FGSKRPRQLD DESSEMENLL  360
KRAMPWLGEE ICIKDPQTQN TIMPGLSLVQ WMNMNMQQNS SFANTAMQSE YLRSLSNPSM  420
QNLGAADLSR QLCLQNQILQ QNSIQFSSPK LPQQMQPVNE LSKATLPLNQ LGVSTKPQEQ  480
TQDPSNLQRQ QQSMNQLLPL SQSQTNLVQA QVLVQNQMQQ QQPPSTTQNQ QSSTSQLQLL  540
PHQQQHQQQK LLHQQQQLLL QQQQFQQQQQ NQQLNKMAAQ VPNLAAQQLQ LSDQQLQLQL  600
LQKLQQQQQS LLSQPAVTLA QLPLIQEQQK LILDMQQQLS NSQSLSQQQT MPQQSTKVPS  660
QTPPPPPPPP PPPHMQQEPQ QKVPQKHVGF PDTSHAAIPP ATSVNAISVA GSPLMANGAT  720
HSVLTEEIPS CSTSPSTANG NHLVQPILGR NQQCGMINNE KVPQSTAPMS IPSSLDAVTA  780
APRATKELPK LNSNVKQSVT ASKLPNPGPV PQNFVNSAPP TDYLETASSA TSVWLSQTDG  840
LLHQGFPMSN FNQQQLFKDV PPETDIQGAD PSNNTLFGIN SDGHLGFPMG ADGFLSNGID  900
ASKYQNHIST DIDGNYRIPK DGQQEISSSM VSQSFGASDM AFNSIDSAMN DGGFLNRTSW  960
PPAPLKRMRT FTKVYKRGAV GRSIDISQYS GYDELKHALA RMFSIEGQLE ERQRIGWKLV  1020
YKDHEDDILL LGDDPWEEFV NCVRCIRILS PQEVQQMSLD GDLGNNILPN QACSSSDGGN  1080
VWRARCDQNS GNPSNGSYDQ FE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1422232783388Auxin 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.4NG315300.1.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_025810783.10.0auxin response factor 19-like isoform X3
SwissprotQ0D9R70.0ARFS_ORYSJ; Auxin response factor 19
TrEMBLA0A2T7DUH40.0A0A2T7DUH4_9POAL; Auxin response factor
STRINGPavir.Db00232.1.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
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. Zhang S, et al.
    The auxin response factor, OsARF19, controls rice leaf angles through positively regulating OsGH3-5 and OsBRI1.
    Plant Cell Environ., 2015. 38(4): p. 638-54
    [PMID:24995795]