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.6NG180800.1.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: 316aa    MW: 34069.9 Da    PI: 6.3433
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6NG180800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding51.72e-161462148
                         TSSS-HHHHHHHHHHHHHTTTT.-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGgg.tWktIartmgkgRtlkqcksrwqkyl 48
                         +g+W++eEd  l+++++++G+g +W + ++t+g++R++k+c++rw++yl
  Pavir.6NG180800.1.p 14 KGPWSPEEDAMLKNYIEEHGTGgNWIALPHTIGLKRCGKSCRLRWLNYL 62
                         79*********************************************97 PP
2Myb_DNA-binding39.71.2e-1269111246
                          SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                          g +T+eEd ++  +    G++ W+ Ia+ ++ gRt++++k++w++
  Pavir.6NG180800.1.p  69 GDFTPEEDSIICSLYISIGSR-WSIIAAQLP-GRTDNDVKNYWNT 111
                          789******************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.015962IPR017930Myb domain
SuperFamilySSF466896.68E-2712109IPR009057Homeodomain-like
SMARTSM007171.2E-111364IPR001005SANT/Myb domain
PfamPF002491.2E-141462IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.4E-241569IPR009057Homeodomain-like
CDDcd001673.84E-91662No hitNo description
PROSITE profilePS5129421.49763117IPR017930Myb domain
SMARTSM007171.7E-1167115IPR001005SANT/Myb domain
PfamPF002495.0E-1169111IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.9E-2370117IPR009057Homeodomain-like
CDDcd001673.76E-871113No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0035987Biological Processendodermal cell differentiation
GO:0045597Biological Processpositive regulation of cell differentiation
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000021Biological Processregulation of ion homeostasis
GO:2000067Biological Processregulation of root morphogenesis
GO:0048226Cellular ComponentCasparian strip
GO:0000975Molecular Functionregulatory region DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 316 aa     Download sequence    Send to blast
MGRAPCCDKA AVKKGPWSPE EDAMLKNYIE EHGTGGNWIA LPHTIGLKRC GKSCRLRWLN  60
YLRPNIKHGD FTPEEDSIIC SLYISIGSRW SIIAAQLPGR TDNDVKNYWN TKLKKRLLGR  120
RKDRDAHHRQ GAGAATSQTS AENTNDAGER ALSASAMERI QLCMHLQELQ NPLGAAHHNP  180
VVWPGCSRAA TLSNSSFNSN SSTVTVAEQA GRSSSMNGHL MGAQLEGGAA MDGGLGSPSS  240
AENSNVISME AELEELLYGE GSGSGKAGAV DGGVQHGDVD WWSYDNQVKS PVGCWDFTPE  300
TTNAVFQDYT SVYDI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-23141177108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In roots, expressed in endodermal cells from the late elongation zones to the differentiation zone and, to a lower extent, in endodermal cells of the meristematic zone. {ECO:0000269|PubMed:26124109, ECO:0000269|PubMed:26371322}.
UniprotTISSUE SPECIFICITY: Expressed in leaves, roots (endodermis-specific) and seedlings. {ECO:0000269|PubMed:16461581, ECO:0000269|PubMed:26124109, ECO:0000269|PubMed:26371322, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factors that activates genes required for endodermal differentiation but represses genes involved in proliferative divisions, thus regulating the transition from proliferation to differentiation in root endodermis (PubMed:26371322). Required for Casparian strip formation by positively regulating the expression of the Casparian strip genes CASP1, PER64 and ESB1 and other endodermis-specific genes, thus triggering correct localized lignin biosynthesis in root endodermis and subsequently regulating global ion homeostasis (PubMed:26124109, PubMed:26371322). {ECO:0000269|PubMed:26124109, ECO:0000269|PubMed:26371322}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.6NG180800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Directly up-regulated by SCARECROW (SCR), as part of the differentiation program controlled by SHORT-ROOT (SHR). {ECO:0000269|PubMed:24517883, ECO:0000269|PubMed:26371322}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1117881e-141AK111788.1 Oryza sativa Japonica Group cDNA clone:J023093J22, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025821752.10.0transcription factor MYB36-like
SwissprotQ9FKL22e-88MYB36_ARATH; Transcription factor MYB36
TrEMBLA0A3L6PR860.0A0A3L6PR86_PANMI; Transcription factor RAX2-like
STRINGPavir.Fb01086.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP13538412
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G57620.13e-82myb domain protein 36
Publications ? help Back to Top
  1. Fernández-Marcos M, et al.
    Control of Arabidopsis lateral root primordium boundaries by MYB36.
    New Phytol., 2017. 213(1): p. 105-112
    [PMID:27891649]