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

Gene ID: 11906, updated on 21-Apr-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 prostate cancer. Orthologous to human ZFHX3 (zinc finger homeobox 3). [provided by Alliance of Genome Resources, Apr 2022]
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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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
  • 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. Zfhx3 modulates retinal sensitivity and circadian responses to light. Hughes S, et al. FASEB J, 2021 Sep. PMID 34383984, Free PMC Article
  2. Zfhx3 is essential for progesterone/progesterone receptor signaling to drive ductal side-branching and alveologenesis in mouse mammary glands. Ma G, et al. J Genet Genomics, 2019 Mar 20. PMID 30954439
  3. The Zfhx3-Mediated Axis Regulates Sleep and Interval Timing in Mice. Balzani E, et al. Cell Rep, 2016 Jul 19. PMID 27373158, Free PMC Article
  4. ZFHX3 knockdown increases arrhythmogenesis and dysregulates calcium homeostasis in HL-1 atrial myocytes. Kao YH, et al. Int J Cardiol, 2016 May 1. PMID 26930642
  5. Deletion of atbf1/zfhx3 in mouse prostate causes neoplastic lesions, likely by attenuation of membrane and secretory proteins and multiple signaling pathways. Sun X, et al. Neoplasia, 2014 May. PMID 24934715, Free PMC Article

See all (78) 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 IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
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 metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
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 
acts_upstream_of_or_within 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 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 DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
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
  
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 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
  
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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