C6orf120

chromosome 6 open reading frame 120

Basic information

Region (hg38): 6:169702126-169706360

Links

ENSG00000185127 ∙ NCBI:387263 ∙ OMIM:616987 ∙ HGNC:21247 ∙ Uniprot:Q7Z4R8 ∙ 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 C6orf120 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the C6orf120 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						0
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding			13	2	1	16
Total	0	0	13	2	1

Variants in C6orf120

This is a list of pathogenic ClinVar variants found in the C6orf120 region.

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

Position	Type	Phenotype	Significance	ClinVar
6-169704017-T-G		not specified	Uncertain significance (Jan 22, 2024)
6-169704049-G-A		not specified	Uncertain significance (Dec 28, 2024)
6-169704050-T-C		not specified	Uncertain significance (Sep 04, 2024)
6-169704053-G-T		not specified	Uncertain significance (Sep 08, 2024)
6-169704055-G-T		not specified	Uncertain significance (Sep 02, 2024)
6-169704058-G-A		not specified	Uncertain significance (Oct 29, 2024)
6-169704059-C-G		not specified	Uncertain significance (Jan 03, 2024)
6-169704085-C-A		not specified	Uncertain significance (Feb 06, 2023)
6-169704085-C-T		not specified	Uncertain significance (Feb 28, 2023)
6-169705159-C-T		not specified	Uncertain significance (Apr 01, 2024)
6-169705217-G-A		not specified	Uncertain significance (Jan 22, 2024)
6-169705256-A-G		not specified	Uncertain significance (Sep 04, 2024)
6-169705282-G-A		not specified	Uncertain significance (Feb 12, 2025)
6-169705620-A-G			Likely benign (Jun 01, 2022)
6-169705629-T-C			Benign (Jan 25, 2018)
6-169705642-A-G		not specified	Uncertain significance (Jun 06, 2023)
6-169705703-T-G		not specified	Likely benign (Oct 06, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
C6orf120	protein_coding	protein_coding	ENST00000332290	1	4169

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.01	139	109	1.27	0.00000523	1223
Missense in Polyphen		36	33.679	1.0689		412
Synonymous	-2.80	75	49.8	1.51	0.00000272	403
Loss of Function

LoF frequencies by population

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

dbNSFP

Source: dbNSFP

• Function: FUNCTION: May be involved in induction of apoptosis in CD4(+) T- cells, but not CD8(+) T-cells or hepatocytes. {ECO:0000269|PubMed:22340178}.
• Pathway: Neutrophil degranulation;Innate Immune System;Immune System (Consensus)

Intolerance Scores

• loftool: 0.321
• rvis_EVS: 0.17
• rvis_percentile_EVS: 65.56

Haploinsufficiency Scores

• pHI: 0.302
• hipred: N
• hipred_score: 0.306
• ghis: 0.406

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: 1600012H06Rik

Gene ontology

• Biological process: apoptotic process;neutrophil degranulation
• Cellular component: extracellular region;azurophil granule lumen