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_Os08g06280.8
Common NameLOC4344713, LSD1, Os08g0159500, OsJ_26122
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 LSD
Protein Properties Length: 144aa    MW: 14806.3 Da    PI: 7.9177
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os08g06280.8genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD144.13.3e-142751125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      C+gCr+lL+YP+GA+sV+Ca+C tV
  LOC_Os08g06280.8 27 CSGCRNLLMYPAGATSVCCAVCSTV 51
                      ***********************99 PP
2zf-LSD146.84.8e-156690125
           zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                      CggC+tlL+Y rGA+sV+C++C+tV
  LOC_Os08g06280.8 66 CGGCHTLLMYIRGATSVQCSCCHTV 90
                      ************************9 PP
3zf-LSD141.91.7e-13104128125
           zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                       Cg+Cr lL+Y +GA+sV+Ca+C++V
  LOC_Os08g06280.8 104 CGNCRMLLMYQYGARSVKCAVCNFV 128
                       ***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.0E-132454IPR005735Zinc finger, LSD1-type
PfamPF069431.7E-112751IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010538.5E-156392IPR005735Zinc finger, LSD1-type
PfamPF069431.3E-126690IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.9E-12101131IPR005735Zinc finger, LSD1-type
PfamPF069431.0E-12104128IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009814Biological Processdefense response, incompatible interaction
GO:0034051Biological Processnegative regulation of plant-type hypersensitive response
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:0045595Biological Processregulation of cell differentiation
GO:2000121Biological Processregulation of removal of superoxide radicals
GO:0005634Cellular Componentnucleus
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0020039anatomyleaf lamina
Sequence ? help Back to Top
Protein Sequence    Length: 144 aa     Download sequence    Send to blast
MPVPLAPYPT PPVPFTPPNG AQSQLVCSGC RNLLMYPAGA TSVCCAVCST VTAVPAPGTE  60
MAQLVCGGCH TLLMYIRGAT SVQCSCCHTV NLAMEANQVA HVNCGNCRML LMYQYGARSV  120
KCAVCNFVTS VGASPGTDQK PSS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.576822e-58callus| flower| leaf| panicle| root| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329691712e-58
Expression AtlasQ0J7V9-
Functional Description ? help Back to Top
Source Description
UniProtNegative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269|PubMed:15915636}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os08g06280.8
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By light. Down-regulated by dark. {ECO:0000269|PubMed:15915636}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs08g06280
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6206760.0AJ620676.1 Oryza sativa Japonica Group mRNA for zinc finger protein, clone Z52.
GenBankAK1117590.0AK111759.1 Oryza sativa Japonica Group cDNA clone:J023055E16, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015648106.12e-99protein LSD1 isoform X3
RefseqXP_015648107.12e-99protein LSD1 isoform X3
SwissprotQ0J7V91e-101LSD1_ORYSJ; Protein LSD1
TrEMBLA0A0D3GWK01e-98A0A0D3GWK0_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0AR351e-98A0A0E0AR35_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0QEL71e-98A0A0E0QEL7_ORYRU; Uncharacterized protein
STRINGOGLUM08G03690.12e-99(Oryza glumipatula)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G32540.31e-60lsd one like 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Wang L,Pei Z,Tian Y,He C
    OsLSD1, a rice zinc finger protein, regulates programmed cell death and callus differentiation.
    Mol. Plant Microbe Interact., 2005. 18(5): p. 375-84
    [PMID:15915636]