CMC2

C-X9-C motif containing 2, the group of Mitochondrial respiratory chain complex assembly factors

Basic information

Region (hg38): 16:80966448-81020270

Previous symbols: [ "C16orf61" ]

Links

ENSG00000103121 ∙ NCBI:56942 ∙ ∙ HGNC:24447 ∙ Uniprot:Q9NRP2 ∙ 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 CMC2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the CMC2 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						0
missense			1	1		2
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	1	1	0

Variants in CMC2

This is a list of pathogenic ClinVar variants found in the CMC2 region.

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

Position	Type	Phenotype	Significance	ClinVar
16-80976101-C-T		not specified	Uncertain significance (Dec 21, 2022)
16-80976160-T-C		not specified	Uncertain significance (Jun 10, 2024)
16-80976168-G-C		not specified	Likely benign (Jun 06, 2023)
16-80981835-G-A		not specified	Uncertain significance (Jun 10, 2024)
16-80997367-G-C		not specified	Uncertain significance (Mar 31, 2024)
16-81011993-G-A		not specified	Uncertain significance (Jul 06, 2021)
16-81012064-G-A		not specified	Uncertain significance (Dec 06, 2021)
16-81012075-G-C		not specified	Uncertain significance (Jan 10, 2023)
16-81014142-C-T		not specified	Likely benign (Jul 15, 2021)
16-81014146-C-G		not specified	Uncertain significance (Apr 24, 2024)
16-81017329-T-C		not specified	Likely benign (Feb 05, 2024)
16-81017333-A-C		not specified	Uncertain significance (Sep 06, 2022)
16-81017343-C-T		not specified	Uncertain significance (Jan 23, 2024)
16-81017782-T-G		not specified	Uncertain significance (May 11, 2022)
16-81020104-C-A		not specified	Uncertain significance (Sep 26, 2023)
16-81020167-A-T		not specified	Uncertain significance (Oct 22, 2021)
16-81020205-T-C		not specified	Uncertain significance (Jul 14, 2022)
16-81020209-A-G		not specified	Uncertain significance (Sep 30, 2021)
16-81020233-C-T		not specified	Uncertain significance (Apr 25, 2022)
16-81020263-C-T		not specified	Uncertain significance (Mar 06, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
CMC2	protein_coding	protein_coding	ENST00000219400	3	44178

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.199	0.659	125686	0	17	125703	0.0000676

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.648	52	40.4	1.29	0.00000205	530
Missense in Polyphen		19	14.121	1.3455		215
Synonymous	-0.178	15	14.2	1.06	7.66e-7	126
Loss of Function	0.982	1	2.76	0.362	1.14e-7	43

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000595	0.0000595
Ashkenazi Jewish	0.00	0.00
East Asian	0.000218	0.000217
Finnish	0.00	0.00
European (Non-Finnish)	0.0000969	0.0000967
Middle Eastern	0.000218	0.000217
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in cytochrome c oxidase biogenesis. {ECO:0000250}.
• Pathway: Metabolism of proteins;Mitochondrial protein import (Consensus)

Recessive Scores

• pRec: 0.0933

Intolerance Scores

• rvis_EVS: 0.15
• rvis_percentile_EVS: 64.11

Haploinsufficiency Scores

• pHI: 0.102
• hipred: N
• hipred_score: 0.253
• ghis: 0.531

Essentials

• essential_gene_CRISPR: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Cmc2

Gene ontology

• Cellular component: mitochondrion