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.5NG216300.1.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: 124aa    MW: 14078.5 Da    PI: 9.1787
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG216300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding59.86e-191461148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         +grWT+eEde+l++++k++G g+W++ ++  g+ R++k+c++rw +yl
  Pavir.5NG216300.1.p 14 KGRWTKEEDEILARYIKEHGEGSWRSLPKNAGLLRCGKSCRLRWINYL 61
                         79******************************99************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.605.4E-24564IPR009057Homeodomain-like
PROSITE profilePS5129422.842965IPR017930Myb domain
SMARTSM007171.0E-131363IPR001005SANT/Myb domain
PfamPF002494.0E-171461IPR001005SANT/Myb domain
SuperFamilySSF466892.28E-221589IPR009057Homeodomain-like
CDDcd001676.66E-121661No hitNo description
PROSITE profilePS500904.12462123IPR017877Myb-like domain
Gene3DG3DSA:1.10.10.604.1E-86588IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 124 aa     Download sequence    Send to blast
MGRAPCCEKV GLKKGRWTKE EDEILARYIK EHGEGSWRSL PKNAGLLRCG KSCRLRWINY  60
LRADLKRGNI SEEEEEMIIK LHATLGNRCA SFRHPAHLPQ LPGFCVQTRS CAMIIIPAFE  120
GIW*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A4e-131292584B-MYB
1h8a_C4e-13129225104MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.34711e-147root| stem
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.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG216300.1.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
GenBankHF6794111e-128HF679411.1 Saccharum hybrid cultivar Co 86032 mRNA for ScMYB5 protein.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001105092.14e-55R2R3 Myb transcription factor MYB-IF35
SwissprotP278988e-51MYBP_MAIZE; Myb-related protein P
TrEMBLA0A3L6FA189e-54A0A3L6FA18_MAIZE; Myb-related protein P
TrEMBLQ84U769e-54Q84U76_MAIZE; MYB transcription factor
STRINGPavir.J12840.1.p4e-86(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
AT2G47460.16e-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]