FEM1C

fem-1 homolog C, the group of Ankyrin repeat domain containing

Basic information

Region (hg38): 5:115520907-115544775

Links

ENSG00000145780 ∙ NCBI:56929 ∙ OMIM:608767 ∙ HGNC:16933 ∙ Uniprot:Q96JP0 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

• complex neurodevelopmental disorder (Limited), mode of inheritance: AD

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the FEM1C gene.

• Inborn genetic diseases (12 variants)
• not provided (3 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the FEM1C 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			14			14
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	14	0	1

Variants in FEM1C

This is a list of pathogenic ClinVar variants found in the FEM1C region.

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

Position	Type	Phenotype	Significance	ClinVar
5-115524469-T-C		not specified	Uncertain significance (Jul 12, 2023)
5-115524636-T-C		not specified	Uncertain significance (Nov 21, 2022)
5-115524700-G-A			Benign (Jun 29, 2018)
5-115524865-C-G		not specified	Uncertain significance (Jan 31, 2022)
5-115524870-C-T		not specified	Uncertain significance (Jan 24, 2024)
5-115525024-C-T		not specified	Uncertain significance (Feb 15, 2023)
5-115525059-T-C			Uncertain significance (Oct 10, 2022)
5-115525090-T-C		not specified	Uncertain significance (Sep 27, 2022)
5-115525234-C-T		not specified	Uncertain significance (Jun 06, 2023)
5-115525440-T-C		not specified	Uncertain significance (Apr 29, 2022)
5-115525477-T-C		not specified	Uncertain significance (Apr 17, 2023)
5-115543054-C-T		not specified	Uncertain significance (Jun 06, 2023)
5-115543118-C-G			Uncertain significance (Jun 06, 2023)
5-115543118-C-T			Uncertain significance (Oct 11, 2022)
5-115543270-T-C		not specified	Uncertain significance (Nov 09, 2023)
5-115543305-T-A		not specified	Uncertain significance (May 09, 2023)
5-115543309-T-C		not specified	Uncertain significance (Dec 20, 2023)
5-115543326-C-A		not specified	Uncertain significance (Feb 28, 2023)
5-115543328-T-C		not specified	Uncertain significance (Jul 14, 2021)
5-115543334-G-A		not specified	Uncertain significance (Oct 18, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
FEM1C	protein_coding	protein_coding	ENST00000274457	2	23984

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.629	0.370	125651	0	7	125658	0.0000279

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.43	212	338	0.628	0.0000168	4082
Missense in Polyphen		42	135.89	0.30907		1644
Synonymous	0.404	121	127	0.954	0.00000662	1213
Loss of Function	3.04	3	16.2	0.185	8.58e-7	232

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000616	0.0000615
Ashkenazi Jewish	0.000200	0.000198
East Asian	0.000112	0.000109
Finnish	0.00	0.00
European (Non-Finnish)	0.0000177	0.0000176
Middle Eastern	0.000112	0.000109
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Probable component of an E3 ubiquitin-protein ligase complex, in which it may act as a substrate recognition subunit. {ECO:0000250}.
• Pathway: Post-translational protein modification;Metabolism of proteins;Neddylation (Consensus)

Recessive Scores

• pRec: 0.113

Intolerance Scores

• loftool: 0.365
• rvis_EVS: -0.63
• rvis_percentile_EVS: 17.03

Haploinsufficiency Scores

• pHI: 0.628
• hipred: Y
• hipred_score: 0.728
• ghis: 0.544

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.932

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Fem1c

Gene ontology

• Biological process: protein ubiquitination;post-translational protein modification
• Cellular component: nucleoplasm;cytosol
• Molecular function: protein binding