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.2NG632800.1.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: 228aa    MW: 24310.5 Da    PI: 10.2007
Description WOX family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG632800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox48.12e-151878257
                         T--SS--HHHHHHHHHHHHH.SSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
             Homeobox  2 rkRttftkeqleeLeelFek.nrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                         r+R+t+++eq+ +Le+ F++   +p ++e  ++ k l     + +++V++WFqNrR + ++
  Pavir.2NG632800.1.p 18 RSRWTPKPEQILILESIFNSgMVNPPKNETVRIRKLLerfgAVGDANVFYWFQNRRSRSRR 78
                         89*****************99*************************************997 PP
2Wus_type_Homeobox106.71.4e-341780265
    Wus_type_Homeobox  2 artRWtPtpeQikiLeelyksGlrtPnkeeiqritaeLeeyGkiedkNVfyWFQNrkaRerqkq 65
                         +r+RWtP+peQi iLe++++sG+++P+k+e+ ri++ Le++G+++d+NVfyWFQNr++R+r++q
  Pavir.2NG632800.1.p 17 VRSRWTPKPEQILILESIFNSGMVNPPKNETVRIRKLLERFGAVGDANVFYWFQNRRSRSRRRQ 80
                         589***********************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007111.1751479IPR001356Homeobox domain
SMARTSM003891.4E-51683IPR001356Homeobox domain
SuperFamilySSF466891.67E-131685IPR009057Homeodomain-like
PfamPF000463.3E-131878IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.601.7E-81884IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 228 aa     Download sequence    Send to blast
MDAGGLSPAR HAAAEPVRSR WTPKPEQILI LESIFNSGMV NPPKNETVRI RKLLERFGAV  60
GDANVFYWFQ NRRSRSRRRQ RQLQAAAAAG SSSSSGGAGL SGLSVSWPPP SAGMMGDLDS  120
GGGDDLFAIS RQMGYANGGG SGSAAMTSQQ QRQRQLYYSC QPAGSMTTVF INGVATEVAR  180
GPIDLRSMFG QDVMLVHSTG GILPVNEYGI LMQSLQMGES YFLVTRG*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In crown roots, mainly expressed after crown roots emergence but barely in crown root initials. {ECO:0000269|PubMed:26307379}.
UniprotTISSUE SPECIFICITY: Present in crown roots. {ECO:0000269|PubMed:26307379}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in crown root development (PubMed:26307379, PubMed:29740464). Promotes the development of crown roots (both initiation and elongation), main components of the fibrous root system (PubMed:26307379, PubMed:29740464). Regulates the expression of genes required for crown root development, and hormone-responsive genes involved in cytokinin signaling (e.g. RR1, RR2, RR3 and RR4), and auxin signaling (e.g. IAA5, IAA11, IAA23 and IAA31) (PubMed:26307379). Functions dowstream of the auxin biosynthetic genes YUCCA1 in the promotion of crown root development (PubMed:29740464). {ECO:0000269|PubMed:26307379, ECO:0000269|PubMed:29740464}.
UniProtTranscription factor which may be involved in developmental processes. Promotes the development of crown roots (both initiation and elongation), main components of the fibrous root system, by regulating the expression of genes required for crown root development and hormone-responsive genes involved in cytokinin (e.g. RR1, RR2, RR3 and RR4) and auxin (e.g. IAA5, IAA11, IAA23 and IAA31) signaling. {ECO:0000250|UniProtKB:Q0D3I7}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG632800.1.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
GenBankAK0635036e-99AK063503.1 Oryza sativa Japonica Group cDNA clone:001-116-E11, full insert sequence.
GenBankAK0732326e-99AK073232.1 Oryza sativa Japonica Group cDNA clone:J033021B15, full insert sequence.
GenBankAK3706096e-99AK370609.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv2113D12.
GenBankAP0051676e-99AP005167.4 Oryza sativa Japonica Group genomic DNA, chromosome 7, BAC clone:OSJNBa0060O17.
GenBankAP0149636e-99AP014963.1 Oryza sativa Japonica Group DNA, chromosome 7, cultivar: Nipponbare, complete sequence.
GenBankCP0126156e-99CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025802778.15e-98WUSCHEL-related homeobox 11-like
SwissprotB8B6445e-84WOX11_ORYSI; WUSCHEL-related homeobox 11
SwissprotQ0D3I75e-84WOX11_ORYSJ; WUSCHEL-related homeobox 11
TrEMBLA0A2S3H5561e-96A0A2S3H556_9POAL; Uncharacterized protein
TrEMBLA0A2T7F0821e-96A0A2T7F082_9POAL; Uncharacterized protein
STRINGPavir.Ba00249.1.p1e-165(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP107837109
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G03660.13e-35WUSCHEL related homeobox 11
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. Zhao Y, et al.
    The Interaction between Rice ERF3 and WOX11 Promotes Crown Root Development by Regulating Gene Expression Involved in Cytokinin Signaling.
    Plant Cell, 2015. 27(9): p. 2469-83
    [PMID:26307379]
  3. Zhang T, et al.
    The YUCCA-Auxin-WOX11 Module Controls Crown Root Development in Rice.
    Front Plant Sci, 2018. 9: p. 523
    [PMID:29740464]