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

Gene ID: 11906, updated on 12-May-2024

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
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Genomic context

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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA4228

Gene Ontology Provided by MGI

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

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_007496.3NP_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:21522208
    HOX; Homeodomain
    COG5576
    Location:26032747
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:15571581
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:14131433
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam05109
    Location:31123191
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00046
    Location:22522306
    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_030243257.2XP_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:21522208
    HOX; Homeodomain
    COG5576
    Location:26032747
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:15571581
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:14131433
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam05109
    Location:31123191
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00046
    Location:22522306
    Homeobox; Homeobox domain
  2. XM_030243258.1XP_030099118.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/Swiss-Prot
    Q61329
    UniProtKB/TrEMBL
    E9QMD3
    Conserved Domains (6) summary
    smart00389
    Location:21522208
    HOX; Homeodomain
    COG5576
    Location:26032747
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:15571581
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:14131433
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam05109
    Location:31123191
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00046
    Location:22522306
    Homeobox; Homeobox domain
  3. XM_011248284.3XP_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:12371293
    HOX; Homeodomain
    COG5576
    Location:16881832
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:642666
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:498518
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam05109
    Location:21972276
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00046
    Location:13371391
    Homeobox; Homeobox domain
  4. XM_006530585.5XP_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:21522208
    HOX; Homeodomain
    COG5576
    Location:26032747
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:15571581
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:14131433
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam05109
    Location:31123191
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00046
    Location:22522306
    Homeobox; Homeobox domain
  5. XM_006530586.5XP_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:12371293
    HOX; Homeodomain
    COG5576
    Location:16881832
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:642666
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:498518
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam05109
    Location:21972276
    Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
    pfam00046
    Location:13371391
    Homeobox; Homeobox domain