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.9NG123400.1.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: 358aa    MW: 39130 Da    PI: 6.5736
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG123400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox314.4e-102663031855
                          HHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHH CS
             Homeobox  18 lFeknrypsaeereeLAkklgLterqVkvWFqNrRake 55 
                          l ++++yps+ e+  LA+++gL+++q+ +WF N+R ++
  Pavir.9NG123400.1.p 266 LHYRCPYPSEMEKIALAESTGLEQKQINNWFINQRKRH 303
                          45689******************************885 PP
2ELK30.58.3e-11223244122
                  ELK   1 ELKhqLlrKYsgyLgsLkqEFs 22 
                          ELK++Ll+KY+g+Lg+L++E++
  Pavir.9NG123400.1.p 223 ELKRRLLKKYRGCLGNLRKELC 244
                          9*******************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012559.9E-1872116IPR005540KNOX1
PfamPF037901.1E-1674114IPR005540KNOX1
SMARTSM012565.5E-23125176IPR005541KNOX2
PfamPF037911.4E-19130175IPR005541KNOX2
PfamPF037891.9E-7223244IPR005539ELK domain
SMARTSM011882.8E-5223244IPR005539ELK domain
PROSITE profilePS5121310.58223243IPR005539ELK domain
PROSITE profilePS5007113.038243306IPR001356Homeobox domain
SMARTSM003892.4E-13245310IPR001356Homeobox domain
SuperFamilySSF466891.58E-19245317IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.603.0E-27248309IPR009057Homeodomain-like
CDDcd000861.35E-13255307No hitNo description
PfamPF059204.2E-16263302IPR008422Homeobox KN domain
PROSITE patternPS000270281304IPR017970Homeobox, 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: 358 aa     Download sequence    Send to blast
MEDLSDLGGR GHPGAARPTP GASLPSSSKV SVQVYTVPSS ASGGGARAHV VAPAMLHESS  60
GSGHGGRGGD LDPVKARIVS HPRYHGLLAA FLDCHKVGCP PEAAEEIAAA TREREAWQRA  120
AAAGDGARSG PDPELDQFMD SYCELLVAWK EELSRPLRES KEFLTTVESQ LNSITSTGPP  180
LGALISADDK IGLNDFSDDD EEQGSGRESE EAFVIDPCSD DKELKRRLLK KYRGCLGNLR  240
KELCKKRKKG KLPKEARQKL LSWWELHYRC PYPSEMEKIA LAESTGLEQK QINNWFINQR  300
KRHWKPSEEM QMMDGFHPAQ QNAAAAALYV DARLVGAAAP AMFFAWPDHG AHDLWHN*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1220226DKELKRR
2238247LRKELCKKRK
3244248KKRKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.110980.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Highly expressed in the early globular stage embryo before 2 days after pollination (DAP), as well as in the endosperm. At 3 DAP, expression is down-regulated in the central region and in the center of the ventral region of the embryo, where the shoot subsequently forms, but weakly expressed in other regions until 4 DAP, and then disappears after 4 DAP. During transition between the inflorescence and floral phases, expressed in the inflorescence meristems but not in the floral meristem. {ECO:0000269|PubMed:10095070, ECO:0000269|PubMed:10488233}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may be involved in shoot formation during embryogenesis. {ECO:0000269|PubMed:10488233}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG123400.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004981910.10.0homeobox protein knotted-1-like 7
SwissprotQ948L51e-100KNOS7_ORYSJ; Homeobox protein knotted-1-like 7
TrEMBLA0A3L6TJ080.0A0A3L6TJ08_PANMI; KNOX1 domain containing protein
STRINGPavir.Ia00731.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP150631819
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G08150.16e-66KNOTTED-like from Arabidopsis thaliana
Publications ? help Back to Top
  1. Sato Y,Aoki Y,Matsuoka M
    A loss-of-function mutation in the rice KNOX type homeobox gene, OSH3.
    Plant Cell Physiol., 2002. 43(1): p. 44-51
    [PMID:11828021]
  2. Sato Y,Fukuda Y,Hirano HY
    Mutations that cause amino acid substitutions at the invariant positions in homeodomain of OSH3 KNOX protein suggest artificial selection during rice domestication.
    Genes Genet. Syst., 2001. 76(6): p. 381-92
    [PMID:11922107]