Msh5 mutS homolog 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Msh5provided by RGD
Official Full Name: mutS homolog 5provided by RGD
Primary source: RGD:1303008
See related: EnsemblRapid:ENSRNOG00000000857 AllianceGenome:RGD:1303008
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable double-stranded DNA binding activity. Predicted to be involved in chiasma assembly. Predicted to act upstream of or within female gamete generation and homologous chromosome pairing at meiosis. Predicted to be located in synaptonemal complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma; primary ovarian insufficiency 13; and spermatogenic failure 74. Orthologous to human MSH5 (mutS homolog 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Adrenal (RPKM 14.8), Testes (RPKM 13.1) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (3779180..3797996)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (3773867..3793337)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (5020690..5037125, complement)

Chromosome 20 - NC_086038.1 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 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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General gene information

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Markers

RH142514 (e-PCR)
- UniSTS:231761

BG372572 (e-PCR)
- UniSTS:248928

AI408685 (e-PCR)
- UniSTS:250229

D20Got4 (e-PCR)
- UniSTS:114820

Gene Ontology Provided by RGD

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 double-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mismatched DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in chiasma assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within female gamete generation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within homologous chromosome pairing at meiosis	ISO Inferred from Sequence Orthology more info
involved_in meiosis I	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within meiosis I	ISO Inferred from Sequence Orthology more info
involved_in mismatch repair	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in synaptonemal complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: mutS protein homolog 5

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_212536.2 → NP_997701.2 mutS protein homolog 5

See identical proteins and their annotated locations for NP_997701.2

Status: VALIDATED

Source sequence(s)

BC083904

UniProtKB/TrEMBL

A0A0H2UI03

Conserved Domains (5) summary

cd03281
Location:553 → 759

ABC_MSH5_euk; ATP-binding cassette domain of eukaryotic MutS5 homolog

smart00533
Location:250 → 565

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

pfam05192
Location:250 → 379

MutS_III; MutS domain III

pfam11369
Location:63 → 147

DUF3160; Protein of unknown function (DUF3160)

cl17822
Location:394 → 492

MutS_III; MutS domain III