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.9NG187400.1.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: 302aa    MW: 32816 Da    PI: 8.4285
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9NG187400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding31.34.8e-10555146
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                         ++rWT eE+  l  +++++G g W+tI +          R+  ++k++w++
  Pavir.9NG187400.1.p  5 KQRWTSEEEAALRAGIARHGVGKWRTILKDPEfsstlCYRSNVDLKDKWRN 55
                         79****************************999999978**********99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.153161IPR017930Myb domain
SuperFamilySSF466892.94E-15260IPR009057Homeodomain-like
SMARTSM007171.2E-6459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.0E-13556IPR009057Homeodomain-like
PfamPF002498.0E-7556IPR001005SANT/Myb domain
CDDcd116605.38E-20657No hitNo description
Gene3DG3DSA:1.10.10.105.6E-18119193IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467851.47E-17119200IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005262.4E-13120185IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150424.451122190IPR005818Linker histone H1/H5, domain H15
PfamPF005384.1E-10123183IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0000786Cellular Componentnucleosome
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 302 aa     Download sequence    Send to blast
MGVPKQRWTS EEEAALRAGI ARHGVGKWRT ILKDPEFSST LCYRSNVDLK DKWRNMNVIV  60
STSSSRDKGK TAVKKTRTIP KNNEHTTAIS TVTSDIDDEI VDDKPLASVP SEAQNAPNPK  120
KAHSRLDNII MEAIKSLNEP TGSHRTTIAN YIEEQYWPPS DFDPLLSAKL KDLATSGKLI  180
KVNRKYRIAP SSPNSEGRSP KMLLLEDVQR EPVKIGSNDS KTLTRSQVDS ELARMATMTA  240
EEASAAAARA VAEAEAIMAE AEAAAREAEA AEADAQAAQA FAEAAFLTLK NRNAAKLMAQ  300
A*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.156240.0callus| leaf| root| stem
Functional Description ? help Back to Top
Source Description
UniProtBinds preferentially double-stranded telomeric repeats, but may also bind to the single telomeric strand. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9NG187400.1.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
GenBankAY2806320.0AY280632.1 Zea mays single myb histone 6 (Smh6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025796390.11e-173single myb histone 6 isoform X2
SwissprotC0HIA31e-158SMH6_MAIZE; Single myb histone 6
TrEMBLA0A2T8I1B51e-171A0A2T8I1B5_9POAL; Uncharacterized protein
STRINGPavir.Ia01166.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP132438110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.36e-69telomere repeat binding factor 1
Publications ? help Back to Top
  1. Soderlund C, et al.
    Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.
    PLoS Genet., 2009. 5(11): p. e1000740
    [PMID:19936069]