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.3NG199300.2.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: 696aa    MW: 77775 Da    PI: 6.7154
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3NG199300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.65.5e-2460161199
                          EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                          f+k+lt sd++++g +++ +++a+e+     +++++ +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   
  Pavir.3NG199300.2.p  60 FCKTLTASDTSTHGGFSVLRRHADEClppldMSQHPPNQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL-- 147
                          99*****************************555555669************************************************.. PP

                          SSSEE..EEEEE-S CS
                   B3  86 grsefelvvkvfrk 99 
                          + +++el+v+v+r+
  Pavir.3NG199300.2.p 148 RGENGELRVGVRRA 161
                          449999*****985 PP
2Auxin_resp110.51.8e-36186268183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+ha++t+s+F+++Y+Pr+s++eFvv+++++ ++lk+++s+GmRfkm+fe+e+++e++++Gt+vg+ ++dp+ W +SkWrsLk
  Pavir.3NG199300.2.p 186 AWHAVNTGSMFTIYYKPRTSPAEFVVSRDRYYESLKRNYSIGMRFKMRFEGEEAAEQKFTGTIVGIGASDPSGWADSKWRSLK 268
                          89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.35E-4156189IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-4056175IPR015300DNA-binding pseudobarrel domain
CDDcd100178.63E-2258160No hitNo description
PROSITE profilePS5086311.7360162IPR003340B3 DNA binding domain
PfamPF023628.5E-2260161IPR003340B3 DNA binding domain
SMARTSM010197.7E-2360162IPR003340B3 DNA binding domain
PfamPF065072.7E-33186268IPR010525Auxin response factor
PROSITE profilePS5174522.154567649IPR000270PB1 domain
SuperFamilySSF542773.04E-11569646No hitNo description
PfamPF023093.2E-7614652IPR033389AUX/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: 696 aa     Download sequence    Send to blast
MNIELKAEPD TDEVYAQLTL LPDKKRDENT TTTVESDDPE EEEVPNAPPA TNEQLRIHSF  60
CKTLTASDTS THGGFSVLRR HADECLPPLD MSQHPPNQEL VAKDLHGVEW RFRHIFRGQP  120
RRHLLQSGWS VFVSAKRLVA GDAFIFLRGE NGELRVGVRR ALRHQTTIPS SVISSHSMHL  180
GVLATAWHAV NTGSMFTIYY KPRTSPAEFV VSRDRYYESL KRNYSIGMRF KMRFEGEEAA  240
EQKFTGTIVG IGASDPSGWA DSKWRSLKVR WDEASSVPRP ERVSAWQIEP AVSPSPVNPL  300
PPRFKRSRSN VNASPPIMPN VTREVASKVM PDSQQNSLPR AMHSQGRTQL TSQYRDSSDL  360
KSAQDLTMWS KGIEQERNNI SAQTKLSLEG WTQTRRPEGY NQPLSAFQPL KDAQNPLCSF  420
PSQLSGNRSR NWDTIDSHYP VQQANHNMSP GTLSLMPHNN GFRMDQQMNL SMPGAPHPQR  480
AEIAKFSGKS AFTPLQGHGI DQCSSDWFGH IKPQPLVIEN DGQKTKGTSF KLFGFPLGSL  540
EKSEPLVSPP SVAYDGKQTS PSERNQLGII EVHKQGSALG RSIDLTKFTC YDELIAELDQ  600
MFDFDGELSS PQKNWLVVYT DNEGDMMLVG DDPWNEFCNM VHKISIYTRE EVEKMNPGAL  660
NSRPEDSLSD SLGRGLGSKE APGGPSTSYL NSENH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-139129078354Auxin response factor 1
4ldw_A1e-139129078354Auxin response factor 1
4ldw_B1e-139129078354Auxin response factor 1
4ldx_A1e-139129078354Auxin response factor 1
4ldx_B1e-139129078354Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.18710.0callus| 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.3NG199300.2.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
GenBankBT0665440.0BT066544.1 Zea mays full-length cDNA clone ZM_BFb0026K11 mRNA, complete cds.
GenBankJX4285050.0JX428505.1 Zea mays subsp. mays clone pUT3103 ARF28 ARF type transcription factor mRNA, partial cds.
GenBankKJ7268060.0KJ726806.1 Zea mays clone pUT3124 ARF transcription factor (ARF28) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025806224.10.0auxin response factor 24-like
SwissprotQ2QQX60.0ARFX_ORYSJ; Auxin response factor 24
TrEMBLA0A3L6RAZ80.0A0A3L6RAZ8_PANMI; Auxin response factor
STRINGPavir.Cb00753.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
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. Li G, et al.
    Rice actin-binding protein RMD is a key link in the auxin-actin regulatory loop that controls cell growth.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(28): p. 10377-82
    [PMID:24982173]