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.9KG467400.1.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
Protein Properties Length: 358aa    MW: 38222.1 Da    PI: 5.419
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG467400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding57.43.4e-181461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rgrWT+eEde+l+ +++++G g+W++ ++  g+ R++k+c++rw +yl
  Pavir.9KG467400.1.p 14 RGRWTAEEDEILASYIAKHGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61
                         8*******************************99************97 PP
2Myb_DNA-binding52.31.3e-1667112148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                          rg+ ++eE++ ++++++ lG++ W++Ia++++ gRt++++k++w+++l
  Pavir.9KG467400.1.p  67 RGNISKEEEDVIIKLHATLGNR-WSLIASHLP-GRTDNEIKNYWNSHL 112
                          7899******************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.8E-23564IPR009057Homeodomain-like
PROSITE profilePS5129417.354961IPR017930Myb domain
SuperFamilySSF466893.52E-2911108IPR009057Homeodomain-like
SMARTSM007173.7E-131363IPR001005SANT/Myb domain
PfamPF002492.4E-161461IPR001005SANT/Myb domain
CDDcd001672.25E-111661No hitNo description
PROSITE profilePS5129425.42262116IPR017930Myb domain
Gene3DG3DSA:1.10.10.603.8E-2565116IPR009057Homeodomain-like
SMARTSM007179.5E-1766114IPR001005SANT/Myb domain
PfamPF002495.6E-1567112IPR001005SANT/Myb domain
CDDcd001671.62E-1271112No hitNo description
PfamPF066401.6E-84130357IPR010588Myb-related protein P, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009813Biological Processflavonoid biosynthetic process
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 358 aa     Download sequence    Send to blast
MGRAPCCEKV GLKRGRWTAE EDEILASYIA KHGEGSWRSL PKNAGLLRCG KSCRLRWINY  60
LRADVKRGNI SKEEEDVIIK LHATLGNRWS LIASHLPGRT DNEIKNYWNS HLSRQIHTYR  120
RTYTAGPDAA IAIDISKLHS AEKRRGGRTL GRSPKSAATG GGNKARSKQQ LPGPDDKQPE  180
PAGSAEAKGA SGPVAAAAAS ASAASSPRHS DGARSAVVDP DQNQPGSSVG GGGTNTPEGP  240
WSEDATGPLV LDPAMEFGGT LWEAESEMEA LLSSGSDIHD PLMGFDAVGE AQVDDLLDMD  300
WDGFAAHLWG QPADQQQSDN QSTLLQPDEP QAAAAGCNNH QEHELESFAT WLLSDSF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-24121185110B-MYB
Search in ModeBase
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
MP00627PBMTransfer from PK06182.1Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG467400.1.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
GenBankKJ7283951e-169KJ728395.1 Zea mays clone pUT6679 MYB transcription factor (MYB3) mRNA, partial cds.
GenBankZMU570021e-169U57002.1 Zea mays P protein (P) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025797897.10.0myb-related protein P-like
SwissprotP278981e-112MYBP_MAIZE; Myb-related protein P
TrEMBLA0A3L6TPG00.0A0A3L6TPG0_PANMI; Myb-related protein P-like
STRINGPavir.Ib01420.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP7938563
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47460.13e-74myb 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]