Msh4 mutS homolog 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Msh4provided by MGI
Official Full Name: mutS homolog 4provided by MGI
Primary source: MGI:MGI:1860077
See related: Ensembl:ENSMUSG00000005493 AllianceGenome:MGI:1860077
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: mMsh4; 4930485C04Rik
Summary: Predicted to enable ATP-dependent activity, acting on DNA. Acts upstream of or within gamete generation; homologous chromosome pairing at meiosis; and ovarian follicle development. Located in recombination nodule and synaptonemal complex. Is expressed in several structures, including brain; gonad; heart; and thymus. Orthologous to human MSH4 (mutS homolog 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in testis adult (RPKM 2.5) and ovary adult (RPKM 0.1) See more
Orthologs: human all
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Genomic context

Location:: 3 H3; 3 78.7 cM

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	3	NC_000069.7 (153562783..153611495, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	3	NC_000069.6 (153857141..153906138, complement)

Chromosome 3 - NC_000069.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Study suggests that the dynamic interchromosomal (intergenic) trans-splicing generates functional diversity of the mouse Msh4 gene.
Title: Genomic organization of the mouse Msh4 gene producing bicistronic, chimeric and antisense mRNA.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Targeted (1) 1 citation
Endonuclease-mediated (1)

General gene information

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Markers

U12922 (e-PCR)
- UniSTS:178957

Msh4 (e-PCR), detects polymorphism
- UniSTS:464715

Msh4 (e-PCR), detects polymorphism
- UniSTS:464716

Msh4 (e-PCR), detects polymorphism
- UniSTS:464717

Msh4 (e-PCR), detects polymorphism
- UniSTS:464718

Msh4 (e-PCR), detects polymorphism
- UniSTS:464719

Msh4 (e-PCR), detects polymorphism
- UniSTS:464720

AV144863 (e-PCR)
- UniSTS:165307

Msh4 (e-PCR), detects polymorphism
- UniSTS:546559

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP-dependent DNA damage sensor activity	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mismatched DNA binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within female gamete generation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within homologous chromosome pairing at meiosis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within meiotic cell cycle	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within meiotic cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mismatch repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ovarian follicle development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in reciprocal meiotic recombination	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within spermatogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in condensed chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in condensed nuclear chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in recombination nodule	IDA Inferred from Direct Assay more info	PubMed
located_in synaptonemal complex	IDA Inferred from Direct Assay more info	PubMed
located_in synaptonemal complex	ISS Inferred from Sequence or Structural Similarity more info	PubMed

General protein information

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Preferred Names: mutS protein homolog 4

Names: MutS homolog 4 variant iota 1; MutS homolog 4 variant theta 1

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)

NM_001282054.2 → NP_001268983.1 mutS protein homolog 4 isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) contains alternate exons in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus than isoform 1.

Source sequence(s)

AC087184

Consensus CDS

CCDS80067.1

UniProtKB/TrEMBL

A0A087WQG8, A0A087WQN0

Related

ENSMUSP00000140265.2, ENSMUST00000190449.2

Conserved Domains (5) summary

smart00533
Location:162 → 484

MUTSd; DNA-binding domain of DNA mismatch repair MUTS family

pfam00488
Location:463 → 699

MutS_V; MutS domain V

pfam05188
Location:1 → 121

MutS_II; MutS domain II

pfam05190
Location:321 → 415

MutS_IV; MutS family domain IV

pfam05192
Location:143 → 228

MutS_III; MutS domain III
NM_031870.4 → NP_114076.2 mutS protein homolog 4 isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AC087184

Consensus CDS

CCDS38678.1

Related

ENSMUSP00000005630.5, ENSMUST00000005630.11