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.7NG416700.1.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: 512aa    MW: 55385.8 Da    PI: 6.3756
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG416700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.29e-25113214199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f k+lt+sd+++ g +++p+ +a+++       + ++ +   l ++d +g+ W +++iyr++++r++lt+GW++Fv+a+ L +gD+vvF+
  Pavir.7NG416700.1.p 113 FAKQLTQSDANNGGGFSVPRYCADHIfpmldldDDPPVQ--NLLMRDAHGNHWHFRHIYRGTPRRHLLTTGWSKFVNAKLLVAGDTVVFM 200
                          89******************999777*****97656656..6************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            +r ++ l+v+++r+
  Pavir.7NG416700.1.p 201 --RRPDGDLLVGLRRA 214
                          ..679999*****997 PP
2Auxin_resp58.72.4e-20243312168
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkma.fetedsserrl.sGtvvgvsd 68 
                          aa+ a+++s+F+v+Y Pr++++eFvv++++ve+al++++ +G++++m+ +e ed++++ +  Gtv +++ 
  Pavir.7NG416700.1.p 243 AARLAAQGSPFTVTYFPRQGAAEFVVPRQEVEDALRSRWEPGTQVRMQvMEAEDARRTDWaNGTVKALHP 312
                          68899******************************************858**********9****98764 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.09E-2999217IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.0E-34106216IPR015300DNA-binding pseudobarrel domain
CDDcd100176.06E-20112213No hitNo description
PfamPF023622.4E-21113214IPR003340B3 DNA binding domain
PROSITE profilePS5086312.943113215IPR003340B3 DNA binding domain
SMARTSM010191.7E-15113215IPR003340B3 DNA binding domain
PfamPF065073.8E-15243312IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 512 aa     Download sequence    Send to blast
MAAAAAPALP PPAAPLPHPI VDHDVWLACA VPLSRLPAVG AQVYYFPHGH AEQCPDDLPA  60
PLPTPHLFPC VVTAVTLGAD DRTDEVFAQI SLQPGPHHHH NNVVNNHGNI AYFAKQLTQS  120
DANNGGGFSV PRYCADHIFP MLDLDDDPPV QNLLMRDAHG NHWHFRHIYR GTPRRHLLTT  180
GWSKFVNAKL LVAGDTVVFM RRPDGDLLVG LRRAPRYPVV DPTSTTAPRN ARARVPPGEV  240
MDAARLAAQG SPFTVTYFPR QGAAEFVVPR QEVEDALRSR WEPGTQVRMQ VMEAEDARRT  300
DWANGTVKAL HPNIWRPLEI DWDDSSPFSK TRNKYVNTWQ VQFVSFPPLL KRLKISDTIP  360
PLCAGDGSSL TAPLMIGPES SAMAILLGPP IPAGMQGARH SGPIDVPPPS SSTVGMLTTQ  420
QFFPLSSRDL LQMPPSVISC GSSGIFDPEV GSPPNNSVNT PPPELPVEAK SIQLFGATIT  480
PHFAQIATNG ASEEVNGSTN GVVDEDVGKD F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A9e-621934249388Auxin response factor 5
Search in ModeBase
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.7NG416700.1.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
GenBankBT0673271e-109BT067327.1 Zea mays full-length cDNA clone ZM_BFc0012D17 mRNA, complete cds.
GenBankHM0045201e-109HM004520.1 Zea mays auxin response factor 5 (ARF5) gene, complete cds.
GenBankJX4285171e-109JX428517.1 Zea mays subsp. mays clone pUT3116 ARF5 transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025825005.10.0auxin response factor 13-like
SwissprotQ7XSS91e-155ARFM_ORYSJ; Auxin response factor 13
TrEMBLA0A3L6QLJ80.0A0A3L6QLJ8_PANMI; Auxin response factor
STRINGPavir.J37640.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP113553137
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.12e-89auxin response factor 17
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]