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

Summary

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
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 8; 8 D3

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	8	NC_000074.7 (109005975..109688268)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	8	NC_000074.6 (108279311..108961636)

Chromosome 8 - NC_000074.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Zfhx3 modulates retinal sensitivity and circadian responses to light.
Title: Zfhx3 modulates retinal sensitivity and circadian responses to light.
MicroRNA-133 suppresses ZFHX3-dependent atrial remodelling and arrhythmia.
Title: MicroRNA-133 suppresses ZFHX3-dependent atrial remodelling and arrhythmia.
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.
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.
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.
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.
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.
Circadian transcription, driven by AT motifs in target gene promoters, is evident in adult suprachiasmatic nuclei and represents a circadian gene-regulatory axis, extending beyond the well-characterized transcriptional-translational feedback loop.
Title: The Regulatory Factor ZFHX3 Modifies Circadian Function in SCN via an AT Motif-Driven Axis.
These findings provide in vivo evidence that ATBF1 is a tumor suppressor in the prostate
Title: Deletion of atbf1/zfhx3 in mouse prostate causes neoplastic lesions, likely by attenuation of membrane and secretory proteins and multiple signaling pathways.
These data indicate that tachypacing decreased ATBF1, leading to enhanced STAT3 DNA-binding activity due to the reduced formation of a binary complex of ATBF1 and PIAS3.
Title: Down-regulation of ATBF1 activates STAT3 signaling via PIAS3 in pacing-induced HL-1 atrial myocytes.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

Go to the top of the page Help

Alleles

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

Gene trapped (1) 1 citation
Targeted (2) 1 citation
Chemically induced (ENU) (1)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

D8Mit86 (e-PCR), detects polymorphism
- UniSTS:131633

43.MHAa65T_M13Rev.seq (e-PCR)
- UniSTS:124481

02.MMHAP4FRA8.seq (e-PCR)
- UniSTS:122705

Atbf1 (e-PCR), detects polymorphism
- UniSTS:265047

ATBF1_4388 (e-PCR)
- UniSTS:463552

RH126318 (e-PCR)
- UniSTS:163026

D8Mit113 (e-PCR), detects polymorphism
- UniSTS:131319

Homology

Homologs of the Zfhx3 gene: The Zfhx3 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, and frog.
Orthologs from Annotation Pipeline: 482 organisms have orthologs with human gene Zfhx3
Orthologs

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	PubMed
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	PubMed
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 brain development	IBA Inferred from Biological aspect of Ancestor more info	PubMed
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	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info	PubMed
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 more info	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	PubMed
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

Go to the top of the page Help

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)

Go to the top of the page Help

NEW Try the new Transcript table

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)

NM_007496.2 → 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/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: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000074.7 Reference GRCm39 C57BL/6J

Range

109005975..109688268

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

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

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
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
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/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
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