msh6 mutS homolog 6 (E. coli) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: msh6provided by ZNC
Official Full Name: mutS homolog 6 (E. coli)provided by ZNC
Primary source: ZFIN:ZDB-GENE-020905-3
See related: Ensembl:ENSDARG00000104541 AllianceGenome:ZFIN:ZDB-GENE-020905-3
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb326; wu:fb36c12
Summary: Enables guanine/thymine mispair binding activity. Acts upstream of or within maintenance of DNA repeat elements. Predicted to be part of MutSalpha complex. Is expressed in several structures, including central nervous system; immature eye; neural tube; optic primordium; and ventral mesoderm. 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]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 13

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (48358471..48381048)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (48067441..48090018)

Chromosome 13 - NC_007124.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Identification and characterization of novel knockout mutants of the three major MMR genes, mlh1, msh2, and msh6, in zebrafish that develop tumors at low frequencies.
Title: Zebrafish with mutations in mismatch repair genes develop neurofibromas and other tumors.
Studied MSH6 gene expression in developing zebrafish and the influence of MSH6 expression on the production of mismatch binding factors.
Title: Molecular cloning of zebrafish (Danio rerio) MutS homolog 6(MSH6) and noncoordinate expression of MSH6 gene activity and G-T mismatch binding proteins in zebrafish larvae.

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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

fj83f06.x1 (e-PCR)
- UniSTS:200056

msh6 (e-PCR), detects polymorphism
- UniSTS:205567

Gene Ontology Provided by ZFIN

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	IDA Inferred from Direct Assay more info	PubMed
enables guanine/thymine mispair binding	IGI Inferred from Genetic Interaction more info	PubMed
enables mismatched DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mismatched DNA binding	IDA Inferred from Direct Assay more info	PubMed
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 DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within maintenance of DNA repeat elements	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mismatch repair	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within mismatch repair	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of MutSalpha complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: DNA mismatch repair protein Msh6

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_182860.1 → NP_878280.1 DNA mismatch repair protein Msh6

See identical proteins and their annotated locations for NP_878280.1

Status: PROVISIONAL

Source sequence(s)

BC044350

UniProtKB/TrEMBL

Q803S7

Related

ENSDARP00000131172.1, ENSDART00000171080.2

Conserved Domains (7) summary

COG0249
Location:406 → 1335

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

pfam01624
Location:406 → 524

MutS_I; MutS domain I

pfam05188
Location:537 → 693

MutS_II; MutS domain II

pfam05190
Location:933 → 1025

MutS_IV; MutS family domain IV

pfam05192
Location:740 → 828

MutS_III; MutS domain III

cl02554
Location:83 → 188

PWWP; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins ...

cl21455
Location:1095 → 1322

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases