Msh6 mutS homolog 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Msh6provided by RGD
Official Full Name: mutS homolog 6provided by RGD
Primary source: RGD:2322311
See related: Ensembl:ENSRNOG00000016134 AllianceGenome:RGD:2322311
Gene type: protein coding
RefSeq status: INFERRED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including DNA binding activity; chromatin binding activity; and methylated histone binding activity. Predicted to contribute to several functions, including DNA binding activity; MutLalpha complex binding activity; and adenyl ribonucleotide binding activity. Involved in mismatch repair and spermatogenesis. Predicted to be located in several cellular components, including Golgi apparatus; chromatin; and nucleoplasm. Predicted to be part of MutSalpha complex. Used to study hereditary nonpolyposis colorectal cancer type 5. Human ortholog(s) of this gene implicated in Lynch syndrome; colorectal carcinoma; endometrial cancer; hereditary nonpolyposis colorectal cancer type 5; and mismatch repair cancer syndrome. Orthologous to human MSH6 (mutS homolog 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 452.0), Adrenal (RPKM 99.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q12

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (12316190..12333505, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (6562631..6579995, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (11644565..11662389)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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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

AW550279 (e-PCR)
- UniSTS:181079

RH140511 (e-PCR)
- UniSTS:222581

RH127753 (e-PCR)
- UniSTS:211063

RH126790 (e-PCR)
- UniSTS:209350

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to ADP binding	ISO Inferred from Sequence Orthology more info
contributes_to ATP binding	ISO Inferred from Sequence Orthology more info
enables ATP-dependent DNA damage sensor activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent activity, acting on DNA	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to MutLalpha complex binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables damaged DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
contributes_to four-way junction DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to guanine/thymine mispair binding	ISO Inferred from Sequence Orthology more info
enables guanine/thymine mispair binding	ISO Inferred from Sequence Orthology more info
contributes_to magnesium ion binding	ISO Inferred from Sequence Orthology more info
enables methylated histone binding	ISO Inferred from Sequence Orthology more info
enables mismatched DNA binding	IBA Inferred from Biological aspect of Ancestor more info
contributes_to mismatched DNA binding	ISO Inferred from Sequence Orthology more info
enables mismatched DNA binding	ISO Inferred from Sequence Orthology more info
contributes_to oxidized purine DNA binding	ISO Inferred from Sequence Orthology more info
NOT enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
contributes_to single guanine insertion binding	ISO Inferred from Sequence Orthology more info
contributes_to single thymine insertion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within determination of adult lifespan	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intrinsic apoptotic signaling pathway in response to DNA damage	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within isotype switching	ISO Inferred from Sequence Orthology more info
NOT involved_in maintenance of DNA repeat elements	ISO Inferred from Sequence Orthology more info
involved_in mismatch repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in mismatch repair	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mismatch repair	ISO Inferred from Sequence Orthology more info
involved_in mismatch repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA recombination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA recombination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to UV	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic hypermutation of immunoglobulin genes	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic recombination of immunoglobulin gene segments	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
part_of MutSalpha complex	IBA Inferred from Biological aspect of Ancestor more info
part_of MutSalpha complex	ISO Inferred from Sequence Orthology more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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

General protein information

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Preferred Names: DNA mismatch repair protein Msh6

Names: rCG61559-like

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_001398548.1 → NP_001385477.1 DNA mismatch repair protein Msh6

Status: INFERRED

Source sequence(s)

JAXUCZ010000006

Related

ENSRNOP00000076177.2, ENSRNOT00000093689.2

Conserved Domains (2) summary

cd05837
Location:87 → 194

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

COG0249
Location:410 → 1338

MutS; DNA mismatch repair ATPase MutS [Replication, recombination and repair]