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 AT4G24470.3
Common NameGATA25, TIFY1, ZIM
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family GATA
Protein Properties Length: 317aa    MW: 34223 Da    PI: 6.2821
Description GATA-type zinc finger protein with TIFY domain
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G24470.3genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GATA47.91.8e-15214250135
         GATA   1 CsnCgttk..TplWRrgpdgnktLCnaCGlyyrkkgl 35 
                  C++Cg ++  Tp++Rrgp+g++tLCnaCGl+++ +g+
  AT4G24470.3 214 CTHCGISSkcTPMMRRGPSGPRTLCNACGLFWANRGT 250
                  ******999************************9997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009795.3E-1477112IPR010399Tify domain
PROSITE profilePS5132014.25477112IPR010399Tify domain
PfamPF062002.8E-1279111IPR010399Tify domain
PROSITE profilePS5101711.985146188IPR010402CCT domain
PfamPF062033.2E-14146188IPR010402CCT domain
SuperFamilySSF577165.23E-13207267No hitNo description
SMARTSM004018.1E-18208261IPR000679Zinc finger, GATA-type
PROSITE profilePS5011410.844208267IPR000679Zinc finger, GATA-type
Gene3DG3DSA:3.30.50.102.9E-15212255IPR013088Zinc finger, NHR/GATA-type
CDDcd002023.86E-16213259No hitNo description
PfamPF003205.5E-13214250IPR000679Zinc finger, GATA-type
PROSITE patternPS003440214241IPR000679Zinc finger, GATA-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007623Biological Processcircadian rhythm
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0005667Cellular Componenttranscription factor complex
GO:0000977Molecular FunctionRNA polymerase II regulatory region sequence-specific DNA binding
GO:0001085Molecular FunctionRNA polymerase II transcription factor binding
GO:0001228Molecular Functiontranscriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003682Molecular Functionchromatin binding
GO:0008270Molecular Functionzinc ion binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025195anatomypollen tube cell
PO:0025281anatomypollen
PO:0001016developmental stageL mature pollen stage
PO:0001017developmental stageM germinated pollen stage
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 317 aa     Download sequence    Send to blast
MFGRHSIIPN NQIGTASASA GEDHVSASAT SGHIPYDDME EIPHPDSIYG AASDLIPDGS  60
QLVAHRSDGS ELLVSRPPEG ANQLTISFRG QVYVFDAVGA DKVDAVLSLL GGSTELAPGP  120
QVMELAQQQN HMPVVEYQSR CSLPQRAQSL DRFRKKRNAR CFEKKVRYGV RQEVALRMAR  180
NKGQFTSSKM TDGAYNSGTD QDSAQDDAHP EISCTHCGIS SKCTPMMRRG PSGPRTLCNA  240
CGLFWANRGT LRDLSKKTEE NQLALMKPVS SYKYHPDDGG SVADAANNLN TEAASVEEHT  300
SMVSLANGDN SNLLGDH
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.16500.0flower| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible254164_at0.0
Expression AtlasAT4G24470-
AtGenExpressAT4G24470-
ATTED-IIAT4G24470-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Predominantly expressed in shoot apices, inflorescences and roots. {ECO:0000269|PubMed:10945256, ECO:0000269|PubMed:14966217}.
Functional Description ? help Back to Top
Source Description
TAIRZIM is a putative transcription factor containing an atypical GATA-type zinc-finger motif.
UniProtTranscriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters. {ECO:0000250, ECO:0000269|PubMed:14966217}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00451DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G24470.3
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT1G10550(A), AT1G24260(A), AT1G32170(A), AT3G23730(A), AT4G14130(A)
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G24470
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0353100.0AB035310.1 Arabidopsis thaliana mRNA for ZIM, complete cds.
GenBankAY0860380.0AY086038.1 Arabidopsis thaliana clone 20769 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001190821.10.0GATA-type zinc finger protein with TIFY domain-containing protein
SwissprotQ9LRH60.0GAT25_ARATH; GATA transcription factor 25
TrEMBLF4JQX40.0F4JQX4_ARATH; GATA-type zinc finger protein with TIFY domain-containing protein
STRINGAT4G24470.30.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM50062543
Representative plantOGRP8311661
Publications ? help Back to Top
  1. Nishii A, et al.
    Characterization of a novel gene encoding a putative single zinc-finger protein, ZIM, expressed during the reproductive phase in Arabidopsis thaliana.
    Biosci. Biotechnol. Biochem., 2000. 64(7): p. 1402-9
    [PMID:10945256]
  2. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  3. Shikata M, et al.
    Characterization of Arabidopsis ZIM, a member of a novel plant-specific GATA factor gene family.
    J. Exp. Bot., 2004. 55(397): p. 631-9
    [PMID:14966217]
  4. Jiang Y,Deyholos MK
    Comprehensive transcriptional profiling of NaCl-stressed Arabidopsis roots reveals novel classes of responsive genes.
    BMC Plant Biol., 2006. 6: p. 25
    [PMID:17038189]
  5. Manfield IW,Devlin PF,Jen CH,Westhead DR,Gilmartin PM
    Conservation, convergence, and divergence of light-responsive, circadian-regulated, and tissue-specific expression patterns during evolution of the Arabidopsis GATA gene family.
    Plant Physiol., 2007. 143(2): p. 941-58
    [PMID:17208962]
  6. Vanholme B,Grunewald W,Bateman A,Kohchi T,Gheysen G
    The tify family previously known as ZIM.
    Trends Plant Sci., 2007. 12(6): p. 239-44
    [PMID:17499004]
  7. Zhang J,Cao ML,Huang YB,Wu BJ
    [Study of hrpN(CSDS001) and the gene expression profile of Arabidopsis thaliana induced by Harpin(CSDS001)].
    Yi Chuan, 2007. 29(5): p. 629-36
    [PMID:17548335]
  8. Pauwels L, et al.
    Mapping methyl jasmonate-mediated transcriptional reprogramming of metabolism and cell cycle progression in cultured Arabidopsis cells.
    Proc. Natl. Acad. Sci. U.S.A., 2008. 105(4): p. 1380-5
    [PMID:18216250]
  9. Wang Y, et al.
    Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis.
    Plant Physiol., 2008. 148(3): p. 1201-11
    [PMID:18775970]
  10. Brady SM, et al.
    A stele-enriched gene regulatory network in the Arabidopsis root.
    Mol. Syst. Biol., 2011. 7: p. 459
    [PMID:21245844]
  11. Brand LH, et al.
    Screening for protein-DNA interactions by automatable DNA-protein interaction ELISA.
    PLoS ONE, 2013. 8(10): p. e75177
    [PMID:24146751]
  12. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73
    [PMID:25750178]