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Msx3 msh homeobox 3 [ Mus musculus (house mouse) ]

Gene ID: 17703, updated on 11-Apr-2024

Summary

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Official Symbol
Msx3provided by MGI
Official Full Name
msh homeobox 3provided by MGI
Primary source
MGI:MGI:106587
See related
Ensembl:ENSMUSG00000025469 AllianceGenome:MGI:106587
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
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within negative regulation of histone acetylation and negative regulation of transcription by RNA polymerase II. Located in nucleus. Is expressed in several structures, including central nervous system; future hindbrain; genitourinary system; and trunk mesenchyme. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E11.5 (RPKM 2.6), CNS E14 (RPKM 0.6) and 4 other tissues See more
Orthologs
human all
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Genomic context

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Location:
7 F4; 7 85.04 cM
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (139626070..139629001, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (140046157..140049088, complement)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene a disintegrin and metallopeptidase domain 8 Neighboring gene STARR-seq mESC enhancer starr_20441 Neighboring gene microRNA 7062 Neighboring gene tubulin, gamma complex component 2 Neighboring gene STARR-seq mESC enhancer starr_20442 Neighboring gene STARR-positive B cell enhancer ABC_E6615 Neighboring gene STARR-positive B cell enhancer ABC_E8219 Neighboring gene zinc finger protein 511 Neighboring gene VISTA enhancer mm1489 Neighboring gene STARR-seq mESC enhancer starr_20446 Neighboring gene calcyon neuron-specific vesicular protein Neighboring gene STARR-seq mESC enhancer starr_20447 Neighboring gene proline-rich acidic protein 1

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. MSX3 Switches Microglia Polarization and Protects from Inflammation-Induced Demyelination. Yu Z, et al. J Neurosci, 2015 Apr 22. PMID 25904788, Free PMC Article
  2. Distinct activities of Msx1 and Msx3 in dorsal neural tube development. Liu Y, et al. Development, 2004 Mar. PMID 14973289
  3. Msx homeobox gene family and craniofacial development. Alappat S, et al. Cell Res, 2003 Dec. PMID 14728799
  4. The mechanism of biogenesis and potential function of the two alternatively spliced mRNAs encoded by the murine Msx3 gene. Matsui H, et al. Mol Cell Biochem, 2004 Dec. PMID 15663180
  5. The murine homeobox gene Msx-3 shows highly restricted expression in the developing neural tube. Shimeld SM, et al. Mech Dev, 1996 Apr. PMID 8861099

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. findings established MSX3 as an important microglia polarization regulator, suggested a previously unknown signaling mechanism of MSX3 function.
    Title: MSX3 Switches Microglia Polarization and Protects from Inflammation-Induced Demyelination.
  2. Msx1 and Msx3 can mediate distinct aspects of Bmp signaling during neural tube development
    Title: Distinct activities of Msx1 and Msx3 in dorsal neural tube development.
  3. The function of the two alternatively spliced mRNAs encoded by Msx3 was studied.
    Title: The mechanism of biogenesis and potential function of the two alternatively spliced mRNAs encoded by the murine Msx3 gene.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

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 RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone acetyltransferase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables histone acetyltransferase regulator activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in embryonic morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
homeobox protein MSX-3
Names
homeo box, msh-like 3
homeobox, msh-like 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_001347609.1 → NP_001334538.1  homeobox protein MSX-3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice junction compared to variant 1, that causes a frameshift. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC109205
    Consensus CDS
    CCDS85451.1
    UniProtKB/TrEMBL
    G3X9C7
    Related
    ENSMUSP00000057312.7, ENSMUST00000055353.9

  2. NM_010836.3 → NP_034966.1  homeobox protein MSX-3 isoform 1

    See identical proteins and their annotated locations for NP_034966.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AK012556, BC051983
    Consensus CDS
    CCDS21961.1
    UniProtKB/Swiss-Prot
    P70246, P70354, Q03360, Q80W10
    UniProtKB/TrEMBL
    B2RPS3
    Related
    ENSMUSP00000133484.2, ENSMUST00000172775.4
    Conserved Domains (1) summary
    pfam00046
    Location:90 → 143
    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_000073.7 Reference GRCm39 C57BL/6J

    Range
    139626070..139629001 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P70354.1 GenPept UniProtKB/Swiss-Prot:P70354

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