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.2KG198400.1.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 WOX
Protein Properties Length: 213aa    MW: 24162.1 Da    PI: 8.9241
Description WOX family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2KG198400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox63.33.5e-201172157
                         TT--SS--HHHHHHHHHHHHH.SSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
             Homeobox  1 rrkRttftkeqleeLeelFek.nrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                         ++ R+++t+eq+++L elF+   r+p++e++++++++l    +++ ++V++WFqN++a+e++
  Pavir.2KG198400.1.p 11 KCGRWNPTAEQVKVLTELFRAgLRTPTTEQIQRISTHLsafgKVESKNVFYWFQNHKARERH 72
                         568*****************99**************************************95 PP
2Wus_type_Homeobox110.87.3e-361273364
    Wus_type_Homeobox  3 rtRWtPtpeQikiLeelyksGlrtPnkeeiqritaeLeeyGkiedkNVfyWFQNrkaRerqk 64
                         + RW+Pt+eQ+k+L+el+++GlrtP++e+iqri+++L+++Gk+e+kNVfyWFQN+kaRer++
  Pavir.2KG198400.1.p 12 CGRWNPTAEQVKVLTELFRAGLRTPTTEQIQRISTHLSAFGKVESKNVFYWFQNHKARERHH 73
                         78**********************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003898.5E-41077IPR001356Homeobox domain
PfamPF000461.9E-171272IPR001356Homeobox domain
SuperFamilySSF466891.24E-111376IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.4E-71471IPR009057Homeodomain-like
CDDcd000862.07E-41474No hitNo description
PROSITE profilePS5007110.091873IPR001356Homeobox domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0010078Biological Processmaintenance of root meristem identity
GO:1902459Biological Processpositive regulation of stem cell population maintenance
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 213 aa     Download sequence    Send to blast
MEALSGRVGV KCGRWNPTAE QVKVLTELFR AGLRTPTTEQ IQRISTHLSA FGKVESKNVF  60
YWFQNHKARE RHHHKKRRRG ASSPDSGSGS ASNNEEDGRA ASREPAPDLV LQPPESKREA  120
RSYSHHHHRL LTCYVRDVMM EQQAAEALWE RPTREVETLE LFPLKSYVDL EAEKVRYVRS  180
GAASEQCREF SFFDVAGGRD PPLELRLCSF GP*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During embryogenesis and crown root formation, it is expressed prior to the morphological differentiation of the root. {ECO:0000269|PubMed:12904206}.
UniprotTISSUE SPECIFICITY: Specifically expressed in the central cells of the quiescent center (QC) of the root. {ECO:0000269|PubMed:12904206}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor which may be involved in the specification and maintenance of the stem cells (QC cells) in the root apical meristem (RAM). {ECO:0000269|PubMed:12904206}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2KG198400.1.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
GenBankAM4902390.0AM490239.1 Zea mays mRNA for putative wuschel homeobox protein (wox5B gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818160.11e-134WUSCHEL-related homeobox 9-like
SwissprotQ8W0F11e-124WOX9_ORYSJ; WUSCHEL-related homeobox 9
TrEMBLA0A3L6SPG41e-135A0A3L6SPG4_PANMI; WUSCHEL-related homeobox 9
STRINGPavir.J34036.1.p1e-157(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP94113643
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G11260.15e-36WUSCHEL related homeobox 5
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 S, et al.
    OsFIE2 plays an essential role in the regulation of rice vegetative and reproductive development.
    New Phytol., 2014. 201(1): p. 66-79
    [PMID:24020752]
  3. Chu H, et al.
    A CLE-WOX signalling module regulates root meristem maintenance and vascular tissue development in rice.
    J. Exp. Bot., 2013. 64(17): p. 5359-69
    [PMID:24043854]
  4. Wang W, et al.
    Dwarf Tiller1, a Wuschel-related homeobox transcription factor, is required for tiller growth in rice.
    PLoS Genet., 2014. 10(3): p. e1004154
    [PMID:24625559]
  5. Coudert Y, et al.
    Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation.
    New Phytol., 2015. 206(1): p. 243-54
    [PMID:25442012]