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    Zfhx3 zinc finger homeobox 3 [ Mus musculus (house mouse) ]

    Gene ID: 11906, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Zfhx3provided by MGI
    Official Full Name
    zinc finger homeobox 3provided by MGI
    Primary source
    MGI:MGI:99948
    See related
    Ensembl:ENSMUSG00000038872 AllianceGenome:MGI:99948
    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
    Sci; WBP9; Atbf1; mKIAA4228; A230102L03Rik
    Summary
    Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of cell adhesion; regulation of gene expression; and regulation of locomotor rhythm. Located in mitochondrion. Is expressed in several structures, including central nervous system; eye; foot; genitourinary system; and lung. Human ortholog(s) of this gene implicated in familial atrial fibrillation; hepatocellular carcinoma; lung non-small cell carcinoma (multiple); prostate cancer; and spinocerebellar ataxia type 4. Orthologous to human ZFHX3 (zinc finger homeobox 3). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Broad expression in whole brain E14.5 (RPKM 5.6), adrenal adult (RPKM 5.4) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zfhx3 in Genome Data Viewer
    Location:
    8 D3; 8 56.02 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (109005975..109688272)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (108279311..108961636)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_22618 Neighboring gene predicted gene 8940 Neighboring gene STARR-seq mESC enhancer starr_22620 Neighboring gene predicted gene, 42040 Neighboring gene predicted gene, 39242 Neighboring gene STARR-seq mESC enhancer starr_22621 Neighboring gene STARR-seq mESC enhancer starr_22622 Neighboring gene STARR-seq mESC enhancer starr_22623 Neighboring gene VISTA enhancer mm1540 Neighboring gene STARR-seq mESC enhancer starr_22625 Neighboring gene STARR-positive B cell enhancer mm9_chr8:110841475-110841776 Neighboring gene STARR-seq mESC enhancer starr_22626 Neighboring gene STARR-seq mESC enhancer starr_22627 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:110926143-110926296 Neighboring gene predicted gene, 34675 Neighboring gene predicted gene, 51549 Neighboring gene STARR-seq mESC enhancer starr_22628 Neighboring gene STARR-seq mESC enhancer starr_22629 Neighboring gene predicted gene, 39243 Neighboring gene STARR-seq mESC enhancer starr_22630 Neighboring gene STARR-positive B cell enhancer ABC_E6681 Neighboring gene predicted gene, 42041 Neighboring gene predicted gene, 39244 Neighboring gene brown adipose tissue enriched long non-coding RNA 1 Neighboring gene STARR-seq mESC enhancer starr_22634 Neighboring gene predicted gene, 51548 Neighboring gene STARR-positive B cell enhancer ABC_E2273 Neighboring gene STARR-seq mESC enhancer starr_22637 Neighboring gene predicted gene, 42043 Neighboring gene STARR-seq mESC enhancer starr_22646 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:111410618-111410801 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:111411041-111411405 Neighboring gene microRNA 3108 Neighboring gene STARR-seq mESC enhancer starr_22649 Neighboring gene RIKEN cDNA D030068K23 gene Neighboring gene RIKEN cDNA 4922502B01 gene Neighboring gene family with sequence similarity 54, member A pseudogene Neighboring gene STARR-seq mESC enhancer starr_22650

    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 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. Activation of ATBF1, a multiple-homeodomain zinc-finger gene, during neuronal differentiation of murine embryonal carcinoma cells. Ido A, et al. Dev Biol, 1994 May. PMID 8174773
    2. Cloning of the cDNA encoding the mouse ATBF1 transcription factor. Ido A, et al. Gene, 1996 Feb 12. PMID 8654949
    3. A missense mutation in zinc finger homeobox-3 (ZFHX3) impedes growth and alters metabolism and hypothalamic gene expression in mice. Nolan PM, et al. FASEB J, 2023 Oct. PMID 37713040, Free PMC Article
    4. Assignment of the ATBF1 transcription factor gene (Atbf1) to mouse chromosome band 8E1 by in situ hybridization. Yamada K, et al. Cytogenet Cell Genet, 1996. PMID 8995484
    5. Developmental changes in expression of the ATBF1 transcription factor gene. Watanabe M, et al. Brain Res Mol Brain Res, 1996 Dec. PMID 9013792

    See all (83) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Myeloid Zfhx3 deficiency protects against hypercapnia-induced suppression of host defense against influenza A virus.
      Title: Myeloid Zfhx3 deficiency protects against hypercapnia-induced suppression of host defense against influenza A virus.
    2. A missense mutation in zinc finger homeobox-3 (ZFHX3) impedes growth and alters metabolism and hypothalamic gene expression in mice.
      Title: A missense mutation in zinc finger homeobox-3 (ZFHX3) impedes growth and alters metabolism and hypothalamic gene expression in mice.
    3. Loss of the Atrial Fibrillation-Related Gene, Zfhx3, Results in Atrial Dilation and Arrhythmias.
      Title: Loss of the Atrial Fibrillation-Related Gene, Zfhx3, Results in Atrial Dilation and Arrhythmias.
    4. Zfhx3 modulates retinal sensitivity and circadian responses to light.
      Title: Zfhx3 modulates retinal sensitivity and circadian responses to light.
    5. MicroRNA-133 suppresses ZFHX3-dependent atrial remodelling and arrhythmia.
      Title: MicroRNA-133 suppresses ZFHX3-dependent atrial remodelling and arrhythmia.
    6. Zfhx3 as an integral transcription factor of Pg/PR signaling in driving side-branching and alveologenesis during mammary gland development
      Title: Zfhx3 is essential for progesterone/progesterone receptor signaling to drive ductal side-branching and alveologenesis in mouse mammary glands.
    7. Zfhx3 plays a critical role in the differentiation and survival of late born dopamine receptor D1 medium spiny neurons
      Title: Zfhx3 is required for the differentiation of late born D1-type medium spiny neurons.
    8. findings demonstrate that ZFHX3 maintains an active role in setting the pace of the circadian clock in adult mice, thus sustaining a key role in the maintenance of stable circadian rhythms independent of any earlier developmental disruptions
      Title: Inducible Knockout of Mouse Zfhx3 Emphasizes Its Key Role in Setting the Pace and Amplitude of the Adult Circadian Clock.
    9. ZFHX3 knock-down in atrial myocytes dysregulated calcium homeostasis and increased atrial arrhythmogenesis.
      Title: ZFHX3 knockdown increases arrhythmogenesis and dysregulates calcium homeostasis in HL-1 atrial myocytes.
    10. Data show that knock-out of zinc finger homeobox 3 (ZFHX3) interrupted lactogenesis, resulting in underdeveloped glands.
      Title: Zinc Finger Homeodomain Factor Zfhx3 Is Essential for Mammary Lactogenic Differentiation by Maintaining Prolactin Signaling Activity.
    Submit: New GeneRIF Correction See all GeneRIFs (18)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA4228

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in circadian regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in muscle organ development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of myoblast differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell adhesion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of myoblast differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of locomotor rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to transforming growth factor beta ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to transforming growth factor beta ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion HDA PubMed 
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger homeobox protein 3
    Names
    AT motif-binding factor 1
    AT-binding transcription factor 1
    ZFH-3
    alpha-fetoprotein enhancer-binding protein
    zinc finger homeodomain protein 3

    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_007496.3 → NP_031522.2  zinc finger homeobox protein 3

      See identical proteins and their annotated locations for NP_031522.2

      Status: VALIDATED

      Source sequence(s)
      AC122873, AC127258, AC134561
      Consensus CDS
      CCDS22651.1
      UniProtKB/Swiss-Prot
      Q61329
      UniProtKB/TrEMBL
      E9QMD3
      Related
      ENSMUSP00000044612.9, ENSMUST00000043896.10
      Conserved Domains (6) summary
      smart00389
      Location:2152 → 2208
      HOX; Homeodomain
      COG5576
      Location:2603 → 2747
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1557 → 1581
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1413 → 1433
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05109
      Location:3112 → 3191
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00046
      Location:2252 → 2306
      Homeobox; Homeobox domain

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      109005975..109688272
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030243257.2 → XP_030099117.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/Swiss-Prot
      Q61329
      UniProtKB/TrEMBL
      E9QMD3
      Related
      ENSMUSP00000152353.2, ENSMUST00000220518.2
      Conserved Domains (6) summary
      smart00389
      Location:2152 → 2208
      HOX; Homeodomain
      COG5576
      Location:2603 → 2747
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1557 → 1581
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1413 → 1433
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05109
      Location:3112 → 3191
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00046
      Location:2252 → 2306
      Homeobox; Homeobox domain

    2. XM_030243258.1 → XP_030099118.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/Swiss-Prot
      Q61329
      UniProtKB/TrEMBL
      E9QMD3
      Conserved Domains (6) summary
      smart00389
      Location:2152 → 2208
      HOX; Homeodomain
      COG5576
      Location:2603 → 2747
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1557 → 1581
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1413 → 1433
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05109
      Location:3112 → 3191
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00046
      Location:2252 → 2306
      Homeobox; Homeobox domain

    3. XM_011248284.3 → XP_011246586.1  zinc finger homeobox protein 3 isoform X2

      See identical proteins and their annotated locations for XP_011246586.1

      Conserved Domains (6) summary
      smart00389
      Location:1237 → 1293
      HOX; Homeodomain
      COG5576
      Location:1688 → 1832
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:642 → 666
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:498 → 518
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05109
      Location:2197 → 2276
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00046
      Location:1337 → 1391
      Homeobox; Homeobox domain

    4. XM_006530585.5 → XP_006530648.1  zinc finger homeobox protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006530648.1

      UniProtKB/Swiss-Prot
      Q61329
      UniProtKB/TrEMBL
      E9QMD3
      Conserved Domains (6) summary
      smart00389
      Location:2152 → 2208
      HOX; Homeodomain
      COG5576
      Location:2603 → 2747
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:1557 → 1581
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:1413 → 1433
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05109
      Location:3112 → 3191
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00046
      Location:2252 → 2306
      Homeobox; Homeobox domain

    5. XM_006530586.5 → XP_006530649.1  zinc finger homeobox protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006530649.1

      Conserved Domains (6) summary
      smart00389
      Location:1237 → 1293
      HOX; Homeodomain
      COG5576
      Location:1688 → 1832
      COG5576; Homeodomain-containing transcription factor [Transcription]
      sd00017
      Location:642 → 666
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00020
      Location:498 → 518
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05109
      Location:2197 → 2276
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00046
      Location:1337 → 1391
      Homeobox; Homeobox domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q61329.1 GenPept UniProtKB/Swiss-Prot:Q61329

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