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.2NG498300.1.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: 375aa    MW: 39629.7 Da    PI: 6.8244
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.2NG498300.1.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-181360148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rg W++eEde+lv++++ +G  +W++++++ g+ R++k+c++rw +yl
  Pavir.2NG498300.1.p 13 RGLWSPEEDEKLVKYITAHGHSCWSAVPKHAGLQRCGKSCRLRWINYL 60
                         788*******************************************97 PP
2Myb_DNA-binding50.64.4e-1666109146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                          rg ++++E+  ++d+++ lG++ W+ Ia++++ gRt++++k++w++
  Pavir.2NG498300.1.p  66 RGTFSEQEERTIIDVHRILGNR-WAQIAKHLP-GRTDNEVKNFWNS 109
                          899*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.608.5E-27463IPR009057Homeodomain-like
PROSITE profilePS5129417.851860IPR017930Myb domain
SuperFamilySSF466893.56E-2810107IPR009057Homeodomain-like
SMARTSM007171.4E-131262IPR001005SANT/Myb domain
PfamPF002499.2E-161360IPR001005SANT/Myb domain
CDDcd001678.04E-121660No hitNo description
PROSITE profilePS5129425.59761115IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.0E-2464116IPR009057Homeodomain-like
SMARTSM007171.4E-1565113IPR001005SANT/Myb domain
PfamPF002497.7E-1566109IPR001005SANT/Myb domain
CDDcd001671.15E-1168108No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 375 aa     Download sequence    Send to blast
MGHHCCSKQK VKRGLWSPEE DEKLVKYITA HGHSCWSAVP KHAGLQRCGK SCRLRWINYL  60
RPDLKRGTFS EQEERTIIDV HRILGNRWAQ IAKHLPGRTD NEVKNFWNSC IKKKLIAQGL  120
DPKTHNLLPA SRSLLHGNGA NPSNPAQFHS NGAITNGGAT TPFTISSPTK AAYDTVTAPP  180
PPEMAPAMYD DVPNSAGVLM GLDQVAAAGI PGYPYPDNGG GVLMSFRDQN AAGLHTSMDF  240
MNGSSSSSSM DHAAGMTNGN GFSQGMGVAF VDVTAGMWTT AVESGMCAGI EVGQQQQQPL  300
LPPQGLVQGE VVGRPTVVNG GAAHDKGMDM MDVSSVYGGA GATAFDLELM ESCGLFCGGG  360
GGAGNAMEQL QWDC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A7e-34131157108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in anthers early during endothecial development, with maximal expression during pollen mitosis I and bicellular stages. {ECO:0000269|PubMed:17329564}.
UniprotTISSUE SPECIFICITY: Highly expressed in flowers. {ECO:0000269|PubMed:12753590}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that regulates lignified secondary cell wall thickening of the anther endocethium, which is necessary for anther dehiscence (PubMed:12753590, PubMed:17147638, PubMed:17329564). May play a role in specifying early endothecial cell development by regulating a number of genes linked to secondary thickening such as NST1 and NST2. Acts upstream of the lignin biosynthesis pathway (PubMed:17329564). {ECO:0000269|PubMed:12753590, ECO:0000269|PubMed:17147638, ECO:0000269|PubMed:17329564}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00350DAPTransfer from AT3G12720Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.2NG498300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by auxin. {ECO:0000269|PubMed:23410518}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0040067e-60AP004006.5 Oryza sativa Japonica Group genomic DNA, chromosome 7, BAC clone:OJ1197_D06.
GenBankAP0042597e-60AP004259.2 Oryza sativa Japonica Group genomic DNA, chromosome 7, PAC clone:P0005E02.
GenBankAP0149637e-60AP014963.1 Oryza sativa Japonica Group DNA, chromosome 7, cultivar: Nipponbare, complete sequence.
GenBankCP0126157e-60CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025802845.10.0transcription factor MYB83-like
SwissprotQ9SPG34e-68MYB26_ARATH; Transcription factor MYB26
TrEMBLA0A3L6QSH70.0A0A3L6QSH7_PANMI; Transcription factor MYB12-like
STRINGPavir.Ba00923.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP97513545
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G12720.17e-83myb domain protein 67
Publications ? help Back to Top
  1. Coego A, et al.
    The TRANSPLANTA collection of Arabidopsis lines: a resource for functional analysis of transcription factors based on their conditional overexpression.
    Plant J., 2014. 77(6): p. 944-53
    [PMID:24456507]
  2. Yang C, et al.
    Transcription Factor MYB26 Is Key to Spatial Specificity in Anther Secondary Thickening Formation.
    Plant Physiol., 2017. 175(1): p. 333-350
    [PMID:28724622]
  3. Ghelli R, et al.
    A Newly Identified Flower-Specific Splice Variant of AUXIN RESPONSE FACTOR8 Regulates Stamen Elongation and Endothecium Lignification in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 620-637
    [PMID:29514943]