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.5KG190600.1.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 TALE
Protein Properties Length: 293aa    MW: 32092.1 Da    PI: 5.9313
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG190600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.72.2e-092262592255
                          SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
             Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                           +yp++e++ +LA+ +gL+ +q+ +WF N+R ++
  Pavir.5KG190600.1.p 226 WPYPTEEDKVRLAAMTGLDPKQINNWFINQRKRH 259
                          69*****************************885 PP
2ELK34.35.2e-12179200122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          ELK++Ll+KYsg+L+ L++EF+
  Pavir.5KG190600.1.p 179 ELKDMLLKKYSGCLSRLRSEFL 200
                          9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012557.2E-213781IPR005540KNOX1
PfamPF037902.1E-203979IPR005540KNOX1
SMARTSM012568.7E-2782133IPR005541KNOX2
PfamPF037911.6E-2386132IPR005541KNOX2
PfamPF037895.9E-9179200IPR005539ELK domain
SMARTSM011882.0E-6179200IPR005539ELK domain
PROSITE profilePS5121310.441179199IPR005539ELK domain
PROSITE profilePS5007112.633199262IPR001356Homeobox domain
SuperFamilySSF466898.55E-20201270IPR009057Homeodomain-like
SMARTSM003894.4E-14201266IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.0E-27204264IPR009057Homeodomain-like
CDDcd000863.05E-13211263No hitNo description
PfamPF059204.8E-17219258IPR008422Homeobox KN domain
PROSITE patternPS000270237260IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010073Biological Processmeristem maintenance
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 293 aa     Download sequence    Send to blast
MEDLYSIHPG ISRAGGAASE VSVAGAGGAA APSDLTELMK AQIASHPRYP SLLSAYIECR  60
KVGAPPQVAS LLEEVSRERR GGAGEIGVDP ELDEFMDSYC RVLVRYKEEL SRPFDEAASF  120
LSSIQAQLSN LCSGGSSPAA TTATHSDNMM GSSEDEQCSG DTDVPDIGQE HSSRLADHEL  180
KDMLLKKYSG CLSRLRSEFL KKRKKGKLPK DARTVLLEWW NTHYRWPYPT EEDKVRLAAM  240
TGLDPKQINN WFINQRKRHW KPSEDMRFAL MEGVAGGSSG TTLYFDTGTI GP*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1194203LRSEFLKKRK
2200204KKRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.173370.0leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Highly expressed in the early globular stage embryo before 2 days after pollination (DAP), but not in the endosperm. At 3 and 4 DAP, expression is restricted to the region around or just below the center of the ventral side of the embryo, where the shoot apex subsequently arises. During the transition to the shoot apex differentiation stage, expression is divided between the upper and basal regions of the shoot area, and the notch between the first leaf primordium and epiblast, respectively. When the first leaf primordia is evident, expression is localized to the notches between the shoot apical meristem (SAM) and the first leaf primordium and the putative second leaf primordium. Expressed uniformly in the inflorescence meristem, but after the transition from inflorescence to the floral phase, located specifically in the notches between the floral meristem and glume primordia. At later stages of flower development, uniformly expressed throughout the corpus of the meristem, and in the notches between glume primordia, but less well defined than in the previous stage. {ECO:0000269|PubMed:10488233}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during early embryogenesis. {ECO:0000269|PubMed:10488233}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00670PBMTransfer from GRMZM2G087741Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG190600.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY7819010.0AY781901.1 Saccharum hybrid cultivar Pindar isolate c53a homeobox protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817775.10.0homeobox protein knotted-1-like 1
SwissprotQ9FP291e-168KNOS1_ORYSJ; Homeobox protein knotted-1-like 1
TrEMBLA0A2T7DNB10.0A0A2T7DNB1_9POAL; Uncharacterized protein
STRINGPavir.Ea00998.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP16983892
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G23380.16e-86KNOTTED1-like homeobox gene 6
Publications ? help Back to Top
  1. Park SH, et al.
    A Ds-insertion mutant of OSH6 (Oryza sativa Homeobox 6) exhibits outgrowth of vestigial leaf-like structures, bracts, in rice.
    Planta, 2007. 227(1): p. 1-12
    [PMID:17624547]