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 ONIVA12G17410.1
Organism
Oryza nivara
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
Family LSD
Protein Properties Length: 183aa    MW: 19465.6 Da    PI: 8.323
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA12G17410.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD143.35.8e-14731125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     C+gCr++L YPrGApsV+Ca+C++V
  ONIVA12G17410.1  7 CHGCRNILLYPRGAPSVCCAVCHAV 31
                     ************************9 PP
2zf-LSD148.31.7e-154771125
          zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                     CggCrtlL+Y+r+A+sVRC++CdtV
  ONIVA12G17410.1 47 CGGCRTLLMYTRNATSVRCSCCDTV 71
                     ************************9 PP
3zf-LSD150.82.7e-1685109125
          zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdtV 25 
                      Cg+C+t+L+YP+GApsV+Ca+C+++
  ONIVA12G17410.1  85 CGQCQTVLMYPYGAPSVKCAICNFI 109
                      ***********************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010533.1E-12431IPR005735Zinc finger, LSD1-type
PfamPF069434.2E-11731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010531.4E-154474IPR005735Zinc finger, LSD1-type
PfamPF069432.1E-124771IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010533.7E-1182110IPR005735Zinc finger, LSD1-type
PfamPF069432.4E-1485109IPR005735Zinc finger, LSD1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000303Biological Processresponse to superoxide
GO:0001666Biological Processresponse to hypoxia
GO:0002240Biological Processresponse to molecule of oomycetes origin
GO:0009626Biological Processplant-type hypersensitive response
GO:0009862Biological Processsystemic acquired resistance, salicylic acid mediated signaling pathway
GO:0010104Biological Processregulation of ethylene-activated signaling pathway
GO:0010310Biological Processregulation of hydrogen peroxide metabolic process
GO:0010602Biological Processregulation of 1-aminocyclopropane-1-carboxylate metabolic process
GO:0010618Biological Processaerenchyma formation
GO:0043069Biological Processnegative regulation of programmed cell death
Sequence ? help Back to Top
Protein Sequence    Length: 183 aa     Download sequence    Send to blast
MQSQIVCHGC RNILLYPRGA PSVCCAVCHA VSSTAPSPGM DIAHLICGGC RTLLMYTRNA  60
TSVRCSCCDT VNLVRPVSSI AHLNCGQCQT VLMYPYGAPS VKCAICNFIT NTGMNTMRHL  120
PPNGTSYTVP STSAPTTQSQ NVTVVVENPM TVDAKGKLVS NVVVGVTTGD IKVEEKKYFG  180
VPY
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1118370.0AK111837.1 Oryza sativa Japonica Group cDNA clone:J023139G05, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620418.11e-119protein LOL2
SwissprotQ2QMB31e-120LOL2_ORYSJ; Protein LOL2
TrEMBLA0A0E0JCA51e-130A0A0E0JCA5_ORYNI; Uncharacterized protein
STRINGONIVA12G17410.11e-131(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP134738124
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G20380.72e-60LSD family protein
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. Wu J, et al.
    OsLOL1, a C2C2-type zinc finger protein, interacts with OsbZIP58 to promote seed germination through the modulation of gibberellin biosynthesis in Oryza sativa.
    Plant J., 2014. 80(6): p. 1118-30
    [PMID:25353370]