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    Zfat zinc finger and AT hook domain containing [ Mus musculus (house mouse) ]

    Gene ID: 380993, updated on 12-May-2024

    Summary

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    Official Symbol
    Zfatprovided by MGI
    Official Full Name
    zinc finger and AT hook domain containingprovided by MGI
    Primary source
    MGI:MGI:2681865
    See related
    Ensembl:ENSMUSG00000022335 AllianceGenome:MGI:2681865
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Gm922; Zfat1; Zfp406
    Summary
    Enables DNA-binding transcription activator activity, RNA polymerase II-specific. Acts upstream of or within hematopoietic progenitor cell differentiation and spongiotrophoblast layer development. Predicted to be located in nucleus. Is expressed in several structures, including extraembryonic component; nervous system; and placenta. Human ortholog(s) of this gene implicated in autoimmune thyroiditis. Orthologous to human ZFAT (zinc finger and AT-hook domain containing). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in ovary adult (RPKM 1.9), placenta adult (RPKM 1.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zfat in Genome Data Viewer
    Location:
    15 D2; 15 29.44 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (67955563..68130771, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (68083714..68258922, complement)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700012I11 gene Neighboring gene STARR-seq mESC enhancer starr_38899 Neighboring gene STARR-seq mESC enhancer starr_38900 Neighboring gene STARR-seq mESC enhancer starr_38902 Neighboring gene STARR-seq mESC enhancer starr_38903 Neighboring gene STARR-seq mESC enhancer starr_38904 Neighboring gene predicted gene, 53906 Neighboring gene STARR-seq mESC enhancer starr_38905 Neighboring gene STARR-positive B cell enhancer ABC_E7377 Neighboring gene ribosomal protein L21 pseudogene Neighboring gene predicted gene 20732 Neighboring gene microRNA 30b

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Zfat expression in ZsGreen reporter gene knock‑in mice: Implications for a novel function of Zfat in definitive erythropoiesis. Tsunoda T, et al. Int J Mol Med, 2018 Nov. PMID 30106088, Free PMC Article
    2. Molecular mechanisms of transcriptional regulation by the nuclear zinc-finger protein Zfat in T cells. Ishikura S, et al. Biochim Biophys Acta, 2016 Nov. PMID 27591365
    3. Zfat-deficient CD4⁺ CD8⁺ double-positive thymocytes are susceptible to apoptosis with deregulated activation of p38 and JNK. Ishikura S, et al. J Cell Biochem, 2015 Jan. PMID 25169027
    4. ZFAT plays critical roles in peripheral T cell homeostasis and its T cell receptor-mediated response. Doi K, et al. Biochem Biophys Res Commun, 2012 Aug 17. PMID 22828507
    5. ZFAT is a critical molecule for cell survival in mouse embryonic fibroblasts. Doi K, et al. Cell Mol Biol Lett, 2011 Mar. PMID 21225468, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CENP-B promotes the centromeric localization of ZFAT to control transcription of noncoding RNA.
      Title: CENP-B promotes the centromeric localization of ZFAT to control transcription of noncoding RNA.
    2. ZFAT binds to centromeres to control noncoding RNA transcription through the KAT2B-H4K8ac-BRD4 axis.
      Title: ZFAT binds to centromeres to control noncoding RNA transcription through the KAT2B-H4K8ac-BRD4 axis.
    3. Zfat knockdown partially inhibited CD71(-/low)Ter119(-) to CD71(high)Ter119(-) transition of fetal liver erythroid progenitors with impairment in the elevation of CD71 expression. Zfat plays a critical role for erythropoiesis in the fetal liver
      Title: Zfat Is Indispensable for the Development of Erythroid Cells in the Fetal Liver.
    4. findings demonstrated that Zfat regulates the transcription of target genes by binding directly to the TSS proximal region, and that Zfat-target genes play important roles in T-cell homeostasis
      Title: Molecular mechanisms of transcriptional regulation by the nuclear zinc-finger protein Zfat in T cells.
    5. Zfat-deficient T cells show increased numbers of autophagosomes and decreased levels of p62 protein, together indicating that Zfat deficiency promotes lysosomal FoxO1 degradation through autophagy.
      Title: The Nuclear Zinc Finger Protein Zfat Maintains FoxO1 Protein Levels in Peripheral T Cells by Regulating the Activities of Autophagy and the Akt Signaling Pathway.
    6. results demonstrate that Zfat critically participates in the development of DP thymocytes through regulating the activities of p38 and JNK.
      Title: Zfat-deficient CD4⁺ CD8⁺ double-positive thymocytes are susceptible to apoptosis with deregulated activation of p38 and JNK.
    7. Zfat is required for peripheral T-cell homeostasis through IL-7Ralpha expression by controlling the FoxO1 protein.
      Title: Marked Reduction in FoxO1 Protein by its Enhanced Proteasomal Degradation in Zfat-deficient Peripheral T-Cells.
    8. Zfat-deficiency results in a loss of CD3zeta phosphorylation with dysregulation of ERK and Egr activities leading to impaired positive selection.
      Title: Zfat-deficiency results in a loss of CD3ζ phosphorylation with dysregulation of ERK and Egr activities leading to impaired positive selection.
    9. ZFAT is a critical molecule for cell survival in MEFs and MOLT-4 cells at least in part through the regulation of the apoptosis involved in the BCL-2- and IL6st-mediated pathways.
      Title: ZFAT is a critical molecule for cell survival in mouse embryonic fibroblasts.
    10. ZFAT is indispensable for mouse embryonic development and functions as a critical transcription factor for primitive hematopoiesis through direct-regulation of Tal1, Lmo2, and Gata1
      Title: Immune-related zinc finger gene ZFAT is an essential transcriptional regulator for hematopoietic differentiation in blood islands.
    Submit: New GeneRIF Correction See all GeneRIFs (11)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC56951

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within hemopoiesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within spongiotrophoblast layer development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IC
    Inferred by Curator
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger protein ZFAT
    Names
    ZFAT zinc finger 1
    zinc finger protein 403
    zinc finger protein 406

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001145888.2 → NP_001139360.1  zinc finger protein ZFAT isoform 1

      See identical proteins and their annotated locations for NP_001139360.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC108821, AC126249, AC140212
      Consensus CDS
      CCDS49623.1
      UniProtKB/Swiss-Prot
      B2C322, Q7TS63
      UniProtKB/TrEMBL
      E0CX30
      Related
      ENSMUSP00000125257.2, ENSMUST00000160248.8
      Conserved Domains (4) summary
      sd00017
      Location:273 → 293
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:271 → 293
      zf-C2H2; Zinc finger, C2H2 type
      pfam13909
      Location:299 → 323
      zf-H2C2_5; C2H2-type zinc-finger domain
      pfam13465
      Location:285 → 309
      zf-H2C2_2; Zinc-finger double domain

    2. NM_001403039.1 → NP_001389968.1  zinc finger protein ZFAT isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC108821, AC126249, AC140212

    3. NM_198644.3 → NP_941046.1  zinc finger protein ZFAT isoform 2

      See identical proteins and their annotated locations for NP_941046.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in both the 5' and 3' coding regions, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
      Source sequence(s)
      AC108821, AC126249, AC140212
      Consensus CDS
      CCDS49624.1
      UniProtKB/TrEMBL
      E0CX30
      Related
      ENSMUSP00000125732.2, ENSMUST00000162054.9
      Conserved Domains (3) summary
      sd00017
      Location:266 → 286
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:264 → 286
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:278 → 300
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. NR_152182.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC108821, AC126249, AC140212

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000081.7 Reference GRCm39 C57BL/6J

      Range
      67955563..68130771 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006521124.4 → XP_006521187.2  zinc finger protein ZFAT isoform X1

      UniProtKB/TrEMBL
      E0CX30
      Conserved Domains (3) summary
      sd00017
      Location:318 → 338
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:316 → 338
      zf-C2H2; Zinc finger, C2H2 type
      pfam13909
      Location:344 → 368
      zf-H2C2_5; C2H2-type zinc-finger domain

    2. XM_030248622.2 → XP_030104482.1  zinc finger protein ZFAT isoform X3

      UniProtKB/TrEMBL
      E0CX30
      Conserved Domains (3) summary
      sd00017
      Location:261 → 281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259 → 281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13909
      Location:287 → 311
      zf-H2C2_5; C2H2-type zinc-finger domain

    3. XM_011245683.4 → XP_011243985.1  zinc finger protein ZFAT isoform X3

      UniProtKB/TrEMBL
      E0CX30
      Conserved Domains (3) summary
      sd00017
      Location:261 → 281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259 → 281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13909
      Location:287 → 311
      zf-H2C2_5; C2H2-type zinc-finger domain

    RNA

    1. XR_003951402.2 RNA Sequence

    2. XR_004938848.1 RNA Sequence

    3. XR_004938847.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7TS63.2 GenPept UniProtKB/Swiss-Prot:Q7TS63

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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