COX18

cytochrome c oxidase assembly factor COX18, the group of Mitochondrial respiratory chain complex assembly factors

Basic information

Region (hg38): 4:73052362-73069755

Links

ENSG00000163626 ∙ NCBI:285521 ∙ OMIM:610428 ∙ HGNC:26801 ∙ Uniprot:Q8N8Q8 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the COX18 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the COX18 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous				1		1
missense			18			18
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	18	1	0

Variants in COX18

This is a list of pathogenic ClinVar variants found in the COX18 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
4-73058182-A-T		not specified	Uncertain significance (May 20, 2024)
4-73058199-C-T		not specified	Uncertain significance (Feb 16, 2023)
4-73058202-C-T		not specified	Uncertain significance (Mar 06, 2023)
4-73058211-C-T		Sensorineural hearing loss disorder	Uncertain significance (Sep 30, 2020)
4-73061859-C-A		not specified	Uncertain significance (May 15, 2024)
4-73061890-G-A		not specified	Uncertain significance (Dec 08, 2023)
4-73064834-C-G		Mitochondrial complex IV deficiency, nuclear type 1	Uncertain significance (Jun 18, 2023)
4-73065265-C-A		not specified	Uncertain significance (Sep 27, 2022)
4-73065282-C-T		not specified	Uncertain significance (May 30, 2024)
4-73065303-A-G		not specified	Uncertain significance (Mar 04, 2024)
4-73065350-G-C		not specified	Uncertain significance (Sep 12, 2023)
4-73065387-C-T		not specified	Uncertain significance (Oct 18, 2021)
4-73068052-C-A		not specified	Uncertain significance (Aug 15, 2023)
4-73068072-C-A		not specified	Uncertain significance (Oct 10, 2023)
4-73069334-G-C		not specified	Uncertain significance (Nov 01, 2022)
4-73069385-A-C		not specified	Uncertain significance (Dec 09, 2023)
4-73069387-A-G		not specified	Uncertain significance (Jan 08, 2024)
4-73069462-G-A		not specified	Uncertain significance (Dec 03, 2021)
4-73069476-C-T		not specified	Likely benign (Oct 03, 2017)
4-73069514-C-T		not specified	Uncertain significance (Jun 03, 2024)
4-73069538-G-A		not specified	Uncertain significance (Aug 10, 2023)
4-73069573-G-A		not specified	Uncertain significance (Oct 06, 2022)
4-73069639-C-T		not specified	Uncertain significance (Jun 07, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
COX18	protein_coding	protein_coding	ENST00000295890	6	13676

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
6.04e-15	0.00408	125714	0	33	125747	0.000131

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.132	184	189	0.973	0.0000101	2077
Missense in Polyphen		30	35.141	0.85371		413
Synonymous	0.241	73	75.7	0.965	0.00000393	714
Loss of Function	-0.697	20	16.9	1.18	8.92e-7	174

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000243	0.000243
Ashkenazi Jewish	0.00	0.00
East Asian	0.000221	0.000217
Finnish	0.00	0.00
European (Non-Finnish)	0.000161	0.000158
Middle Eastern	0.000221	0.000217
South Asian	0.000165	0.000163
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Mitochondrial membrane insertase required for the translocation of the C-terminus of cytochrome c oxidase subunit II (MT-CO2/COX2) across the mitochondrial inner membrane. Plays a role in MT-CO2/COX2 maturation following the COX20-mediated stabilization of newly synthesized MT-CO2/COX2 protein and before the action of the metallochaperones SCO1/2. Essential for the assembly and stability of the mitochondrial respiratory chain complex IV (also known as cytochrome c oxidase). {ECO:0000269|PubMed:16911509, ECO:0000269|PubMed:28330871}.
• Pathway: Thermogenesis - Homo sapiens (human);Gene expression (Transcription);Generic Transcription Pathway;RNA Polymerase II Transcription;Respiratory electron transport;The citric acid (TCA) cycle and respiratory electron transport;Metabolism;TP53 Regulates Metabolic Genes;Transcriptional Regulation by TP53;Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins. (Consensus)

Recessive Scores

• pRec: 0.0977

Intolerance Scores

• loftool: 0.301
• rvis_EVS: -0.23
• rvis_percentile_EVS: 37.11

Haploinsufficiency Scores

• pHI: 0.0619
• hipred: N
• hipred_score: 0.439
• ghis: 0.556

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.508

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Cox18

Gene ontology

• Biological process: respiratory chain complex IV assembly;protein transport;protein insertion into mitochondrial inner membrane from matrix;mitochondrial respiratory chain complex IV assembly;protein insertion into mitochondrial membrane;protein insertion into membrane
• Cellular component: integral component of mitochondrial inner membrane
• Molecular function: protein binding;protein transporter activity;membrane insertase activity