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.7KG361700.1.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: 509aa    MW: 55154.6 Da    PI: 6.345
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7KG361700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.91.1e-24109210199
                          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+ vF+
  Pavir.7KG361700.1.p 109 FAKQLTQSDANNGGGFSVPRYCADHIfpmldldDDPPVQ--NLLMRDPQGNPWQFRHIYRGTPRRHLLTTGWSKFVNAKLLVAGDTAVFM 196
                          89******************999777*****97656656..6************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            +r ++el+v+++r+
  Pavir.7KG361700.1.p 197 --RRPDGELLVGLRRA 210
                          ..679********997 PP
2Auxin_resp57.36.6e-20241310168
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkma.fetedsserrl.sGtvvgvsd 68 
                          aa+ a+++s+F+v+Y Pr++++eFvv++++ve+al +++ +G++++m+ +e ed++++++  Gtv +++ 
  Pavir.7KG361700.1.p 241 AARLAAEGSPFTVTYFPRQGAAEFVVPRKEVEDALASRWDPGTQVRMQvMEAEDARRTEWaNGTVKALHP 310
                          688999*****************************************858***************98764 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.7E-34102220IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.92E-27103212IPR015300DNA-binding pseudobarrel domain
CDDcd100171.00E-19108209No hitNo description
PfamPF023622.5E-21109210IPR003340B3 DNA binding domain
SMARTSM010196.2E-16109211IPR003340B3 DNA binding domain
PROSITE profilePS5086312.943109211IPR003340B3 DNA binding domain
PfamPF065079.5E-15241310IPR010525Auxin 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: 509 aa     Download sequence    Send to blast
MAAPPPPAAA APHPIVDPDV WLACAVPLSR LPVVGAQVYY FPHGHAEQCP DHLPAPLPTP  60
HLFPCVVTAV TLGADDRTNE VFAQISLQPG PHPPQQQQQH LIINNITHFA KQLTQSDANN  120
GGGFSVPRYC ADHIFPMLDL DDDPPVQNLL MRDPQGNPWQ FRHIYRGTPR RHLLTTGWSK  180
FVNAKLLVAG DTAVFMRRPD GELLVGLRRA PRYPVAVSSS SSRDPPRNAR ARVPPGDVMD  240
AARLAAEGSP FTVTYFPRQG AAEFVVPRKE VEDALASRWD PGTQVRMQVM EAEDARRTEW  300
ANGTVKALHP NIWRALEIDW DDSSPFSKTR NKYVNTWQVQ FVSFPPLLKR LKISDTIPPL  360
CSGDGSSLGA PLIGPESNAM AMLLGPPIPA GMQGARHSGP IDVPPHFSST MGMLTTQQFF  420
PLTSRDLLQM PPSVISGGSS DIFDPEVGSP PNNSVKTPPP ELPVEAKSIQ LFGATITPHS  480
AQIATNGASE EVNGSINGVV DENDGKDF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-571434049388Auxin 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.7KG361700.1.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-111BT067327.1 Zea mays full-length cDNA clone ZM_BFc0012D17 mRNA, complete cds.
GenBankHM0045201e-111HM004520.1 Zea mays auxin response factor 5 (ARF5) gene, complete cds.
GenBankJX4285171e-111JX428517.1 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-153ARFM_ORYSJ; Auxin response factor 13
TrEMBLA0A3L6QLJ80.0A0A3L6QLJ8_PANMI; Auxin response factor
STRINGPavir.J03524.1.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
AT1G77850.11e-92auxin 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]