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.3KG133200.1.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: 301aa    MW: 32443.5 Da    PI: 5.0167
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG133200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox283.6e-092312652155
                          HSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
             Homeobox  21 knrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                          + +yp++e++ +LA+ +gL+ +q+ +WF N+R ++
  Pavir.3KG133200.1.p 231 RWPYPTEEDKVRLAAVTGLDPKQINNWFINQRKRH 265
                          569*****************************885 PP
2ELK33.21.2e-11185206122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          ELK++Ll+KYsg+L+ L++EF+
  Pavir.3KG133200.1.p 185 ELKEMLLKKYSGCLSRLRSEFL 206
                          9********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012551.7E-194791IPR005540KNOX1
PfamPF037903.9E-204988IPR005540KNOX1
SMARTSM012563.2E-2595146IPR005541KNOX2
PfamPF037912.0E-2299145IPR005541KNOX2
SMARTSM011881900104124IPR005539ELK domain
PfamPF037891.4E-8185206IPR005539ELK domain
SMARTSM011883.6E-6185206IPR005539ELK domain
PROSITE profilePS5121310.423185205IPR005539ELK domain
PROSITE profilePS5007112.536205268IPR001356Homeobox domain
SuperFamilySSF466892.4E-19207277IPR009057Homeodomain-like
SMARTSM003896.3E-14207272IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.605.9E-27210270IPR009057Homeodomain-like
CDDcd000863.23E-13217269No hitNo description
PfamPF059209.8E-17225264IPR008422Homeobox KN domain
PROSITE patternPS000270243266IPR017970Homeobox, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 301 aa     Download sequence    Send to blast
MEDLYSIHPG ISRTGGGGAV AAASEASGVA GGAGSPPPPP PPADLTELVK AQIAGHPRYP  60
SLLSAYIECR KVGAPPEVAT LLEEIGRERC AAAAAGGEVG LDPELDEFME AYCGVLERYK  120
EELSRPFDEA ASFLSSVRTQ LSTLCGGAAS LSDEMVGSSE DEPCSGDTDA TDLGQEHSSR  180
LADRELKEML LKKYSGCLSR LRSEFLKKRK KGKLPKDARS ALMDWWNMHY RWPYPTEEDK  240
VRLAAVTGLD PKQINNWFIN QRKRHWKPSE DMRFALMEGV TGGGSSSGTT LYFDTGTIGP  300
*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1200209LRSEFLKKRK
2206210KKRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.168540.0root| 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG133200.1.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
GenBankAF4571180.0AF457118.1 Zea mays knotted1-like homeodomain protein liguleless4a (lg4a) mRNA, complete cds.
GenBankBT0852520.0BT085252.1 Zea mays full-length cDNA clone ZM_BFb0343E20 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001105084.11e-179liguleless 4
SwissprotQ9FP291e-150KNOS1_ORYSJ; Homeobox protein knotted-1-like 1
TrEMBLA0A0A9BTH00.0A0A0A9BTH0_ARUDO; Uncharacterized protein
STRINGPavir.J06042.1.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
AT1G23380.12e-79KNOTTED1-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]