PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5KG399500.1.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: 299aa    MW: 32372.2 Da    PI: 8.3921
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG399500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding42.21.9e-13556147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47
                         ++rWT+eE+  l+ +v+++G+g W+tI r          R+  ++k++w+++
  Pavir.5KG399500.1.p  5 KQRWTPEEEAALKAGVAKHGPGKWRTILRDPDfstllRLRSNVDLKDKWRNL 56
                         79***********************************99***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.418161IPR017930Myb domain
SuperFamilySSF466892.94E-15259IPR009057Homeodomain-like
SMARTSM007171.4E-7459IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.0E-14556IPR009057Homeodomain-like
PfamPF002494.6E-9556IPR001005SANT/Myb domain
CDDcd116603.57E-19656No hitNo description
SMARTSM005262.6E-14121187IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467852.34E-17123195IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.106.3E-18123194IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150425.788124192IPR005818Linker histone H1/H5, domain H15
PfamPF005383.8E-11129185IPR005818Linker histone H1/H5, domain H15
CDDcd000732.65E-10130184No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0046686Biological Processresponse to cadmium ion
GO:0000786Cellular Componentnucleosome
GO:0005730Cellular Componentnucleolus
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
GO:0033613Molecular Functionactivating transcription factor binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0070491Molecular Functionrepressing transcription factor binding
GO:1990841Molecular Functionpromoter-specific chromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 299 aa     Download sequence    Send to blast
MGAPKQRWTP EEEAALKAGV AKHGPGKWRT ILRDPDFSTL LRLRSNVDLK DKWRNLSVTA  60
GGYGSREKAR MALKKGRRVV PKLTAEPMDV DANGLDNVHD AVIDAEPLAM SVEPLALEGS  120
PEKSVARLDD LILEAIKKLK EPSGSNKAAI AAYIEEQYWL PADFQRLLST KLKALVNSGK  180
LMKVNQKYRI APSSPSLGGI STKVYSAEEM NGDNNAKQLT KPQVDAELEK MKGMAKEEAA  240
AFAAKAVAEA EVAIAEAEEA ARIAELAEND AETAKAFLEA VTLSMRDRNA ASMMLRAC*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.139010.0callus| leaf| root
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00607ChIP-seqTransfer from AT1G49950Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG399500.1.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
GenBankAY2716590.0AY271659.1 Zea mays single myb histone 1 (Smh1) mRNA, complete cds.
GenBankBT0421770.0BT042177.1 Zea mays full-length cDNA clone ZM_BFb0153F14 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025818200.10.0single myb histone 1
SwissprotB4FT401e-149SMH2_MAIZE; Single myb histone 2
TrEMBLA0A3L6SQP00.0A0A3L6SQP0_PANMI; Single myb histone 1-like
STRINGPavir.Ea02064.1.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
AT1G49950.32e-68telomere 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]