PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.1NG291600.2.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: 586aa    MW: 65354.5 Da    PI: 6.5639
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG291600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.72.2e-2335135198
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++ +++aee+       ++++ +  +l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F 
  Pavir.1NG291600.2.p  35 FCKTLTASDTSTHGGFSVLRRHAEEClpqldmtQNPPWQ--ELVAKDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIFL 122
                          99**************************99975555545..8************************************************ PP

                          E-SSSEE..EEEEE- CS
                   B3  84 ldgrsefelvvkvfr 98 
                            + +++el+v+v+r
  Pavir.1NG291600.2.p 123 --RGENGELRVGVRR 135
                          ..449999*****97 PP
2Auxin_resp103.33e-34161246183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdl...dpvrWpnSkWrsLk 83 
                          a+ha+st++ F+v+Y+Pr+s+seFvv+v+k+++a ++k+svGmRfkm+fe+++s+err+sGt++g+  +   +++ W +S WrsLk
  Pavir.1NG291600.2.p 161 ASHAISTGTLFSVFYKPRTSRSEFVVSVNKYLEAKNHKMSVGMRFKMRFEGDESPERRFSGTIIGLGSMpanSTSPWADSDWRSLK 246
                          789*************************************************************988753336789********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.5E-4423164IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.8E-4131150IPR015300DNA-binding pseudobarrel domain
CDDcd100171.90E-2133135No hitNo description
PfamPF023623.7E-2135135IPR003340B3 DNA binding domain
SMARTSM010191.6E-2135137IPR003340B3 DNA binding domain
PROSITE profilePS5086311.46235137IPR003340B3 DNA binding domain
PfamPF065079.5E-33161246IPR010525Auxin response factor
PfamPF023091.5E-6428491IPR033389AUX/IAA domain
PROSITE profilePS5174525.274455537IPR000270PB1 domain
SuperFamilySSF542777.19E-12457533No hitNo description
PfamPF023098.0E-7502546IPR033389AUX/IAA 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: 586 aa     Download sequence    Send to blast
MLQPEADVSR LTYQSEPTSP APELPEPERC NVHSFCKTLT ASDTSTHGGF SVLRRHAEEC  60
LPQLDMTQNP PWQELVAKDL HGNEWHFRHI FRGQPRRHLL TTGWSVFVSS KRLVAGDAFI  120
FLRGENGELR VGVRRLMRQL NNMPSSVISS HSMHLGVLAT ASHAISTGTL FSVFYKPRTS  180
RSEFVVSVNK YLEAKNHKMS VGMRFKMRFE GDESPERRFS GTIIGLGSMP ANSTSPWADS  240
DWRSLKVQWD EPSAVVRPDR VSPWELELLD ATNTQPPQPP LRSKRARPPA SPSIAPELPP  300
VFGFWKSPPE PTHAFSFSGL QRTQELYHSN PNSIFSSSLN VGFNSKNEHS TPTNNHLYWP  360
IRDTRTESYS ASINKLPPER KQESATAGCR LFGIELSNAV SPVVTVASVG QDQPPVVSVD  420
VEPDQLSQPS QANKTDAPAA SSERSPHETE SRQVRSCTKV IMQGMAVGRA VDLTRLEGYD  480
DLLHKLEEMF DIQGELSASL KKWKVIYTDD EDDMMLVGDD PWPEFCGMVK RIYIYSYEEA  540
KSLTPKVKLP VIGDTTKPNL DKLSPESDMP QSDSNNSALV AADKD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-151227197357Auxin response factor 1
4ldw_A1e-151227197357Auxin response factor 1
4ldw_B1e-151227197357Auxin response factor 1
4ldx_A1e-151227197357Auxin response factor 1
4ldx_B1e-151227197357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.59120.0callus| leaf| 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.1NG291600.2.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_025808945.10.0auxin response factor 7-like isoform X1
RefseqXP_025808954.10.0auxin response factor 7-like isoform X1
SwissprotQ6YVY00.0ARFG_ORYSJ; Auxin response factor 7
TrEMBLA0A2S3GQD70.0A0A2S3GQD7_9POAL; Auxin response factor
STRINGPavir.Aa01676.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin response factor 1
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]