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 OB03G34920.1
Common NameLOC102714081
Organism
Oryza brachyantha
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: 176aa    MW: 18425.4 Da    PI: 8.437
Description LSD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB03G34920.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD142.51.1e-13731125
       zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                  C+gCr +L+YP GApsV+CalC+++
  OB03G34920.1  7 CHGCRSVLRYPSGAPSVCCALCQAI 31
                  ***********************97 PP
2zf-LSD139.87.7e-134872125
       zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                  CggCrtlL+Y+r+A  VRC++C tV
  OB03G34920.1 48 CGGCRTLLMYTRNADTVRCSCCSTV 72
                  ***********************99 PP
3zf-LSD1499.8e-1686109124
       zf-LSD1   1 CggCrtlLsYPrGApsVRCalCdt 24 
                   Cg+Crt+L+YP+GApsV+Ca+C+ 
  OB03G34920.1  86 CGQCRTTLMYPYGAPSVKCAICHY 109
                   **********************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010531.1E-12434IPR005735Zinc finger, LSD1-type
PfamPF069435.5E-10731IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010532.4E-144575IPR005735Zinc finger, LSD1-type
PfamPF069431.6E-104872IPR005735Zinc finger, LSD1-type
TIGRFAMsTIGR010534.8E-1283111IPR005735Zinc finger, LSD1-type
PfamPF069431.2E-1486110IPR005735Zinc 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: 176 aa     Download sequence    Send to blast
MQSQIVCHGC RSVLRYPSGA PSVCCALCQA ITTVPPPAPV LEMAHLICGG CRTLLMYTRN  60
ADTVRCSCCS TVNLVRPVNN IAHVSCGQCR TTLMYPYGAP SVKCAICHYI TNTGISTMAP  120
APSPMPASSG SSYNAPSTSV STSRPQNVTV VVENPMTVDE KGKLVSNVVV GVTTGK
Functional Description ? help Back to Top
Source Description
UniProtPutative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapOB03G34920.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1115690.0AK111569.1 Oryza sativa Japonica Group cDNA clone:J013071E13, full insert sequence.
GenBankCT8306790.0CT830679.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA116O15, full insert sequence.
GenBankKP9404720.0KP940472.1 Oryza sativa cultivar Zixuan1 C2C2-zinc finger LSD1-like transcription factor (LSD3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006650331.11e-123PREDICTED: protein LOL3
RefseqXP_015690721.11e-123PREDICTED: protein LOL3
SwissprotQ6ASS21e-115LOL3_ORYSJ; Protein LOL3
TrEMBLJ3LR161e-122J3LR16_ORYBR; Uncharacterized protein
STRINGOB03G34920.11e-123(Oryza brachyantha)
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
AT4G20380.71e-56LSD 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]