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.7KG168900.1.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: 641aa    MW: 71061.1 Da    PI: 6.7856
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7KG168900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.11.9e-24108208198
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++ +++aee+      ++++++ ++l+ +d++g +W +++i+r++++r++lt+GW+ Fv++++L +gD ++F+ 
  Pavir.7KG168900.1.p 108 FCKTLTASDTSTHGGFSVLRRHAEEClpqldmSQNPPC-QELVAKDLHGTEWHFRHIFRGQPKRHLLTTGWSVFVSSKRLVAGDAFIFM- 195
                          99*****************************7556666.59************************************************. PP

                          -SSSEE..EEEEE- CS
                   B3  85 dgrsefelvvkvfr 98 
                           + +++el+v+v+r
  Pavir.7KG168900.1.p 196 -RGENGELRVGVRR 208
                          .449999*****97 PP
2Auxin_resp99.74e-33234319183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsd...ldpvrWpnSkWrsLk 83 
                          a+ha+st++ F+v+Y+Pr+s+s+F+v+v+k+++a k+k+svGmRfkm+fe+++++err+sGt++++     ++ + W +S WrsLk
  Pavir.7KG168900.1.p 234 ASHAISTGTLFSVFYKPRTSRSDFIVSVNKYLEAKKQKISVGMRFKMRFEGDEAPERRFSGTIIDIGSlpaMSKSLWADSDWRSLK 319
                          789*************************************************************997622267778********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.96E-4495237IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.3E-41105223IPR015300DNA-binding pseudobarrel domain
CDDcd100178.57E-22106208No hitNo description
PROSITE profilePS5086311.716108210IPR003340B3 DNA binding domain
SMARTSM010193.6E-21108210IPR003340B3 DNA binding domain
PfamPF023625.5E-22108208IPR003340B3 DNA binding domain
PfamPF065072.0E-31234319IPR010525Auxin response factor
PfamPF023091.9E-11526618IPR033389AUX/IAA domain
PROSITE profilePS5174525.938529622IPR000270PB1 domain
SuperFamilySSF542771.31E-11532608No 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: 641 aa     Download sequence    Send to blast
MSCTGSSGMS VPVRWSPFLD KASESITFPR AIWSSSRHPH TSSLTSTYPC FNLPSKILCS  60
VVNVELRAEA DSDEVYAQIM LQPEADQSKL TSPDHELQEP DKCTAHSFCK TLTASDTSTH  120
GGFSVLRRHA EECLPQLDMS QNPPCQELVA KDLHGTEWHF RHIFRGQPKR HLLTTGWSVF  180
VSSKRLVAGD AFIFMRGENG ELRVGVRRLM RQVNSMPSSV ISSHSMHLGV LATASHAIST  240
GTLFSVFYKP RTSRSDFIVS VNKYLEAKKQ KISVGMRFKM RFEGDEAPER RFSGTIIDIG  300
SLPAMSKSLW ADSDWRSLKV QWDEPSSILR PERISPWEVE PLVAANPQSP QPPSRNKRAR  360
PPASPSMVAE LPSGFGLWKS PTDSARTLSF SEPQRARELF PSIPTSTFSS SSNINFNSKN  420
EPSMLNSQFY WSARDTRADS CAASTNTVIV EKKQEHNSGG CRLFGIDICS AEEEVLPVVT  480
APALGYDQTA ASVELSSDKL SQPSDVNNSD APGASSERLP LESQSRQVRS CTKVIMQGMA  540
VGRAVDLTKL SGYSDLFHKL EEMFDIQGEL GSALKKWRVI YTDDEDDMML VGDDPWNEFC  600
DMVKRIYIYT YEEAKKLTSK SKLPGSSDTS KLSDVSSQSE *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1714434260355Auxin response factor 1
4ldw_A1e-1714434260355Auxin response factor 1
4ldw_B1e-1714434260355Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.161900.0callus| 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.7KG168900.1.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_025823850.10.0auxin response factor 9-like
SwissprotQ0JCZ40.0ARFI_ORYSJ; Auxin response factor 9
TrEMBLA0A2S3I6V40.0A0A2S3I6V4_9POAL; Auxin response factor
STRINGPavir.Ga01750.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.20.0auxin 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]