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_Os03g55540.1
Common NameLOC4334213, Os03g0764100, OSJNBa0002J24.22, OSNPB_030764100
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 C2H2
Protein Properties Length: 270aa    MW: 28292.8 Da    PI: 8.1624
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g55540.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.35.9e-0597119123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       +kC+ CgksFs+   L  H  +H
  LOC_Os03g55540.1  97 FKCSVCGKSFSSYQALGGHKTSH 119
                       89**********99998888777 PP
2zf-C2H2130.00031166188123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C++C k F++   L  H r+H
  LOC_Os03g55540.1 166 HRCSICQKEFPTGQALGGHKRKH 188
                       79*******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF139121.2E-1297120IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.3E-497119IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.0397124IPR007087Zinc finger, C2H2
SMARTSM003550.004697119IPR015880Zinc finger, C2H2-like
SuperFamilySSF576673.12E-997119No hitNo description
PROSITE patternPS00028099119IPR007087Zinc finger, C2H2
SuperFamilySSF576673.12E-9161188No hitNo description
PfamPF139125.1E-12165190IPR007087Zinc finger, C2H2
SMARTSM003550.028166188IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.078166188IPR007087Zinc finger, C2H2
PROSITE patternPS000280168188IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009037anatomylemma
PO:0001047developmental stagelemma development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 270 aa     Download sequence    Send to blast
MSSASSMEAL HAAVLKEEQQ QHEVEEATVV TSSSATSGEE GGHLPQGWAK RKRSRRQRSE  60
EENLALCLLM LARGGHHRVQ APPPLSASAP PPAGAEFKCS VCGKSFSSYQ ALGGHKTSHR  120
VKLPTPPAAP VLAPAPVAAL LPSAEDREPA TSSTAASSDG MTNRVHRCSI CQKEFPTGQA  180
LGGHKRKHYD GGVGAGAGAS STELLATVAA ESEVGSSGNG QSATRAFDLN LPAVPEFVWR  240
PCSKGKKMWD EEEEVQSPLA FKKPRLLTA*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.79120.0callus| flower| leaf| panicle| root| stem
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasQ7G7I8
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During germination, abundant up to fourteen hours after imbibition. Levels decrease slightly after this and then gradually increase again. {ECO:0000269|PubMed:8223628}.
UniprotTISSUE SPECIFICITY: Highest levels in the root apex of wheat seedlings, lowest levels in leaf proximal region. {ECO:0000269|PubMed:8223628}.
Functional Description ? help Back to Top
Source Description
UniProtPotential transcription factor which binds the nonamer motif 5'-CATCCAACG-3'. Possibly involved in regulating transcription of the histone H3 and H4 genes. {ECO:0000269|PubMed:8223628}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g55540.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g55540
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0907130.0AC090713.6 Oryza sativa chromosome 3 BAC OSJNBa0002J24 genomic sequence, complete sequence.
GenBankAP0149590.0AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015633313.10.0zinc finger protein 1
SwissprotQ424301e-117ZFP1_WHEAT; Zinc finger protein 1
TrEMBLA0A0E0GU640.0A0A0E0GU64_ORYNI; Uncharacterized protein
TrEMBLA2XM960.0A2XM96_ORYSI; Uncharacterized protein
TrEMBLQ7G7I80.0Q7G7I8_ORYSJ; Os03g0764100 protein
TrEMBLQ9AXE90.0Q9AXE9_ORYSA; Zinc finger transcription factor ZF1
STRINGOS03T0764100-010.0(Oryza sativa)
STRINGONIVA03G36680.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP102236113
Representative plantOGRP13115149
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G27730.13e-30salt tolerance zinc finger