PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os03g60560.1
Common NameLOC4334592, OJ1754_E06.19, Os03g0820300, OsJ_13136, OSNPB_030820300
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: 171aa    MW: 18215.4 Da    PI: 8.4104
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os03g60560.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.40.0015577123
                      EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                      ++C+ C++ F++   L  H  +H
  LOC_Os03g60560.1 55 FVCKTCSRAFPTFQALGGHRTSH 77
                      89**********99998888877 PP
2zf-C2H212.50.00044109131123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C++Cg  F     L  H+r+H
  LOC_Os03g60560.1 109 HECHICGLGFEMGQALGGHMRRH 131
                       79********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.96E-55181No hitNo description
SMARTSM003550.585577IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.8275582IPR007087Zinc finger, C2H2
PfamPF139122.1E-105579IPR007087Zinc finger, C2H2
PROSITE patternPS0002805777IPR007087Zinc finger, C2H2
SuperFamilySSF576671.55E-5107134No hitNo description
SMARTSM003550.49109131IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.827109136IPR007087Zinc finger, C2H2
PfamPF139121.5E-10109134IPR007087Zinc finger, C2H2
PROSITE patternPS000280111131IPR007087Zinc 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:0009089anatomyendosperm
PO:0007042developmental stagewhole plant fruit formation stage
PO:0007633developmental stageendosperm development stage
Sequence ? help Back to Top
Protein Sequence    Length: 171 aa     Download sequence    Send to blast
MKHPRQEEEV SLALALSTDC SSTASDSSAA AAGGAARRKR ARRRSVVATS GEGEFVCKTC  60
SRAFPTFQAL GGHRTSHLRG RSNGLDLGAI GDKAIRLHRA ADKEHRDKHE CHICGLGFEM  120
GQALGGHMRR HREEMAAAGG GSSADDWVWR CDARPEGIAA EPPVLLELFA *
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.284410.0leaf| root| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO669252320.0
Expression AtlasQ84T96-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, stems and flowers. {ECO:0000269|PubMed:9132053}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor involved in light acclimation, cold and oxidative stress responses. May regulate a collection of transcripts involved in response to high-light, cold and oxidative stress. {ECO:0000269|PubMed:11069694, ECO:0000269|PubMed:14722088, ECO:0000269|PubMed:15634197, ECO:0000269|PubMed:16183833}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os03g60560.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By H(2)O(2), cold, drought, cold or heat stresses, wounding, cucumber mosaic virus (CMV), exposure to high-intensity light and low-oxygen conditions in roots. {ECO:0000269|PubMed:12368499, ECO:0000269|PubMed:14722088, ECO:0000269|PubMed:15634197, ECO:0000269|PubMed:16183833, ECO:0000269|PubMed:18201973, ECO:0000269|PubMed:18922600}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs03g60560
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1044330.0AC104433.8 Oryza sativa chromosome 3 BAC OJ1754_E06 genomic sequence, complete sequence.
GenBankAK0688610.0AK068861.1 Oryza sativa Japonica Group cDNA clone:J013170H07, full insert sequence.
GenBankAP0149590.0AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
GenBankAY2864740.0AY286474.1 Oryza sativa (japonica cultivar-group) zinc finger protein ZFP182 mRNA, complete cds.
GenBankCP0126110.0CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence.
GenBankCT8293160.0CT829316.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCPI011O15, full insert sequence.
GenBankCT8293170.0CT829317.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCPI016A02, full insert sequence.
GenBankCT8293180.0CT829318.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCPI021E01, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015629244.11e-120zinc finger protein ZAT12
SwissprotQ424106e-20ZAT12_ARATH; Zinc finger protein ZAT12
TrEMBLA0A0D9ZF181e-118A0A0D9ZF18_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0GVN31e-118A0A0E0GVN3_ORYNI; Uncharacterized protein
TrEMBLA2XNF51e-118A2XNF5_ORYSI; Uncharacterized protein
TrEMBLQ84T961e-118Q84T96_ORYSJ; C2H2 transcription factor
STRINGOGLUM03G38900.11e-119(Oryza glumipatula)
STRINGOS03T0820300-011e-119(Oryza sativa)
STRINGONIVA03G40710.11e-119(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP130530117
Representative plantOGRP1390044
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G46090.19e-20C2H2 family protein
Publications ? help Back to Top
  1. Huang J, et al.
    A novel rice C2H2-type zinc finger protein lacking DLN-box/EAR-motif plays a role in salt tolerance.
    Biochim. Biophys. Acta, 2007. 1769(4): p. 220-7
    [PMID:17434609]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Shi H,Chan Z
    The cysteine2/histidine2-type transcription factor ZINC FINGER OF ARABIDOPSIS THALIANA 6-activated C-REPEAT-BINDING FACTOR pathway is essential for melatonin-mediated freezing stress resistance in Arabidopsis.
    J. Pineal Res., 2014. 57(2): p. 185-91
    [PMID:24962049]
  4. Munekage YN,Inoue S,Yoneda Y,Yokota A
    Distinct palisade tissue development processes promoted by leaf autonomous signalling and long-distance signalling in Arabidopsis thaliana.
    Plant Cell Environ., 2015. 38(6): p. 1116-26
    [PMID:25293694]
  5. Le CT, et al.
    ZINC FINGER OF ARABIDOPSIS THALIANA12 (ZAT12) Interacts with FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR (FIT) Linking Iron Deficiency and Oxidative Stress Responses.
    Plant Physiol., 2016. 170(1): p. 540-57
    [PMID:26556796]
  6. Ben Daniel BH, et al.
    Identification of novel transcriptional regulators of Zat12 using comprehensive yeast one-hybrid screens.
    Physiol Plant, 2016. 157(4): p. 422-41
    [PMID:26923089]
  7. Tang Y, et al.
    Oxidative stress-induced toxicity of CuO nanoparticles and related toxicogenomic responses in Arabidopsis thaliana.
    Environ. Pollut., 2016. 212: p. 605-614
    [PMID:27016889]
  8. Corrales AR, et al.
    Multifaceted role of cycling DOF factor 3 (CDF3) in the regulation of flowering time and abiotic stress responses in Arabidopsis.
    Plant Cell Environ., 2017. 40(5): p. 748-764
    [PMID:28044345]
  9. Xu J,Tran T,Padilla Marcia CS,Braun DM,Goggin FL
    Superoxide-responsive gene expression in Arabidopsis thaliana and Zea mays.
    Plant Physiol. Biochem., 2017. 117: p. 51-60
    [PMID:28587993]
  10. Nguyen HM, et al.
    Ethanol Enhances High-Salinity Stress Tolerance by Detoxifying Reactive Oxygen Species in Arabidopsis thaliana and Rice.
    Front Plant Sci, 2017. 8: p. 1001
    [PMID:28717360]