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 LOC_Os12g41920.3
Common NameLOC4352780, Os12g0613300, OSNPB_120613300
Organism
Oryza sativa subsp. japonica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family MYB_related
Protein Properties Length: 298aa    MW: 32057.2 Da    PI: 9.4783
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os12g41920.3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding36.11.5e-11555146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHH CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqk 46
                      +++WT+eE+  l+ +++++G g W+tI +          R+  ++k++w++
  LOC_Os12g41920.3  5 KQKWTAEEESALKAGIAKHGAGKWRTILKDPDfsnvlRYRSNVDLKDKWRN 55
                      79***********************************99***********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.732161IPR017930Myb domain
SuperFamilySSF466891.72E-15267IPR009057Homeodomain-like
SMARTSM007179.4E-8459IPR001005SANT/Myb domain
PfamPF002497.6E-8556IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.4E-13556IPR009057Homeodomain-like
CDDcd116608.90E-20657No hitNo description
SuperFamilySSF467851.47E-15115195IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM005267.3E-11116181IPR005818Linker histone H1/H5, domain H15
Gene3DG3DSA:1.10.10.102.0E-14117188IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5150423.123118186IPR005818Linker histone H1/H5, domain H15
PfamPF005383.4E-8123179IPR005818Linker histone H1/H5, domain H15
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0031627Biological Processtelomeric loop formation
GO:0000784Cellular Componentnuclear chromosome, telomeric region
GO:0000786Cellular Componentnucleosome
GO:0003691Molecular Functiondouble-stranded telomeric DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009009anatomyplant embryo
PO:0001081developmental stagemature plant embryo stage
PO:0007042developmental stagewhole plant fruit formation stage
Sequence ? help Back to Top
Protein Sequence    Length: 298 aa     Download sequence    Send to blast
MGAPKQKWTA EEESALKAGI AKHGAGKWRT ILKDPDFSNV LRYRSNVDLK DKWRNMNVTV  60
NASGARDRVK APVVKKPRSA PKHEGHSTST AIAAVTSDGD DDVAEPVPLA TSTSSKRSLS  120
RLDNIIVEAV RSLNEPTGSY KTAIANYIEE QYWPPADFDH VLSSKLNDLT ASGKLIKVNR  180
KYRIAPSSSL SEGRSSKVVL LEDIKKEPTK LDREDVAVLT KSQIDAELAR MRTMTAEEAA  240
AAAARAVAEA EAIMAEAEAA VREAEAAEAD AVAAQAFAEA AMATFKNRSS AKLIIRA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.272520.0callus| flower| leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329908690.0
Expression AtlasQ2QM89-
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
PlantRegMapLOC_Os12g41920.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs12g41920
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1006180.0AK100618.1 Oryza sativa Japonica Group cDNA clone:J023108E10, full insert sequence.
GenBankFJ9402110.0FJ940211.1 Oryza sativa Japonica Group clone KCS061C09 Myb-like DNA binding domain containing protein mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620817.10.0single myb histone 6
RefseqXP_015620818.10.0single myb histone 6
RefseqXP_025877961.10.0single myb histone 6
SwissprotC0HIA31e-108SMH6_MAIZE; Single myb histone 6
TrEMBLI1R7T80.0I1R7T8_ORYGL; Uncharacterized protein
TrEMBLQ2QM890.0Q2QM89_ORYSJ; Myb-like DNA binding domain containing protein
STRINGOS12T0613300-020.0(Oryza sativa)
STRINGORGLA12G0159400.10.0(Oryza glaberrima)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49950.37e-63telomere repeat binding factor 1
Publications ? help Back to Top
  1. Rice Chromosomes 11 and 12 Sequencing Consortia
    The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications.
    BMC Biol., 2005. 3: p. 20
    [PMID:16188032]
  2. Soderlund C, et al.
    Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs.
    PLoS Genet., 2009. 5(11): p. e1000740
    [PMID:19936069]