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.5KG489300.1.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: 292aa    MW: 31802.3 Da    PI: 10.1752
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG489300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding37.36.3e-12556147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47
                         +++WT eE+e l ++v ++G g W+tI +          R+  ++k++w+++
  Pavir.5KG489300.1.p  5 KQKWTSEEEEALRRGVLKHGAGKWRTIQKDPEfspvlSSRSNIDLKDKWRNL 56
                         79***********************************9************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.143160IPR017930Myb domain
SuperFamilySSF466891.05E-15258IPR009057Homeodomain-like
SMARTSM007171.2E-7459IPR001005SANT/Myb domain
PfamPF002492.7E-8556IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.4E-14556IPR009057Homeodomain-like
CDDcd116602.42E-20656No hitNo description
SMARTSM005266.5E-13114179IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.102.0E-12115190IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467853.54E-14115194IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150422.818116185IPR005818Linker histone H1/H5, domain H15
PfamPF005381.8E-8117182IPR005818Linker 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: 292 aa     Download sequence    Send to blast
MGAPKQKWTS EEEEALRRGV LKHGAGKWRT IQKDPEFSPV LSSRSNIDLK DKWRNLSFSA  60
SGMGSRDKTR GPRTTGPSCS PLSTSQASSQ ASVAPVANKV AEAPPGAEKK QQEVKPHPKY  120
GAMILEALSE LNEPNGTELT EICSFIEQRH LVPTTFRRVI GTKLRRLVDS KKIEKVDTKS  180
YRLADSFATR TPAPIKASAP KQKDPSKPSK VSKNLGLFAT SSPALEAAMA AAAKVADAEV  240
KAHDAHDQMM EAERILKMAE KTESLLTIAA EIYDRCSRGE ITTLNPPQRE V*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.115110.0callus| leaf| 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00231DAPTransfer from AT1G72740Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG489300.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815372.11e-165glycylpeptide N-tetradecanoyltransferase 1
SwissprotQ6WLH41e-133SMH3_MAIZE; Single myb histone 3
TrEMBLA0A2S3HSG41e-172A0A2S3HSG4_9POAL; Uncharacterized protein
TrEMBLA0A2T7DHV41e-172A0A2T7DHV4_9POAL; Uncharacterized protein
STRINGPavir.Ea02570.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92473442
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.38e-43telomere 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]
  2. Schnable PS, et al.
    The B73 maize genome: complexity, diversity, and dynamics.
    Science, 2009. 326(5956): p. 1112-5
    [PMID:19965430]