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.9NG682300.1.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 MYB_related
Protein Properties Length: 89aa    MW: 9980.55 Da    PI: 10.0394
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG682300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding61.12.4e-191461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rgrWT+eEde+l+ +++++G g+W++ ++  g+ R++k+c++rw +yl
  Pavir.9NG682300.1.p 14 RGRWTAEEDEILASYIAKHGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61
                         8*******************************99************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.602.3E-24564IPR009057Homeodomain-like
PROSITE profilePS5129422.439965IPR017930Myb domain
SMARTSM007173.7E-131363IPR001005SANT/Myb domain
PfamPF002491.6E-171461IPR001005SANT/Myb domain
SuperFamilySSF466892.84E-221588IPR009057Homeodomain-like
CDDcd001671.47E-101661No hitNo description
Gene3DG3DSA:1.10.10.602.1E-76588IPR009057Homeodomain-like
PROSITE profilePS512947.2576688IPR017930Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 89 aa     Download sequence    Send to blast
MGRAPCCEKV GLKRGRWTAE EDEILASYIA KHGEGSWRSL PKNAGLLRCG KSCRLRWINY  60
LRADVKRGNI SKEEEDVIIK LHATLGNR*
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor postulated to regulate the biosynthetic pathway of a flavonoid-derived pigment in certain floral tissues.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00668SELEXTransfer from GRMZM2G016020Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG682300.1.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
GenBankBT0394851e-101BT039485.1 Zea mays full-length cDNA clone ZM_BFc0015O24 mRNA, complete cds.
GenBankEU9594661e-101EU959466.1 Zea mays clone 218238 myb-related protein Myb4 mRNA, complete cds.
GenBankHQ8586641e-101HQ858664.1 Zea mays clone UT603 MYB transcription factor mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004984641.17e-57myb-related protein P
SwissprotP278981e-54MYBP_MAIZE; Myb-related protein P
TrEMBLA0A3L6TPG06e-56A0A3L6TPG0_PANMI; Myb-related protein P-like
STRINGPavir.Ia03542.1.p9e-58(Panicum virgatum)
STRINGPavir.Ib01420.1.p5e-57(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP11637448
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47460.12e-50myb domain protein 12
Publications ? help Back to Top
  1. Robbins ML,Sekhon RS,Meeley R,Chopra S
    A Mutator transposon insertion is associated with ectopic expression of a tandemly repeated multicopy Myb gene pericarp color1 of maize.
    Genetics, 2008. 178(4): p. 1859-74
    [PMID:18430921]
  2. Sidorenko L,Chandler V
    RNA-dependent RNA polymerase is required for enhancer-mediated transcriptional silencing associated with paramutation at the maize p1 gene.
    Genetics, 2008. 180(4): p. 1983-93
    [PMID:18845841]
  3. Robbins ML,Wang P,Sekhon RS,Chopra S
    Gene structure induced epigenetic modifications of pericarp color1 alleles of maize result in tissue-specific mosaicism.
    PLoS ONE, 2009. 4(12): p. e8231
    [PMID:20011605]
  4. Rhee Y,Sekhon RS,Chopra S,Kaeppler S
    Tissue culture-induced novel epialleles of a Myb transcription factor encoded by pericarp color1 in maize.
    Genetics, 2010. 186(3): p. 843-55
    [PMID:20823340]
  5. Morohashi K, et al.
    A genome-wide regulatory framework identifies maize pericarp color1 controlled genes.
    Plant Cell, 2012. 24(7): p. 2745-64
    [PMID:22822204]