FEM1A

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

Basic information

Region (hg38): 19:4791733-4801273

Links

ENSG00000141965 ∙ NCBI:55527 ∙ OMIM:613538 ∙ HGNC:16934 ∙ Uniprot:Q9BSK4 ∙ 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 FEM1A gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the FEM1A 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			27			27
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	27	0	0

Variants in FEM1A

This is a list of pathogenic ClinVar variants found in the FEM1A region.

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

Position	Type	Phenotype	Significance	ClinVar
19-4791931-G-A		not specified	Uncertain significance (Sep 20, 2023)
19-4791966-G-T		not specified	Uncertain significance (Jun 02, 2023)
19-4791970-C-G		not specified	Uncertain significance (Nov 29, 2021)
19-4792009-G-A		not specified	Uncertain significance (May 07, 2024)
19-4792128-G-A		not specified	Uncertain significance (Feb 27, 2024)
19-4792131-G-A		not specified	Uncertain significance (Dec 16, 2022)
19-4792587-G-A		not specified	Uncertain significance (Dec 11, 2023)
19-4792690-A-G		not specified	Uncertain significance (Dec 07, 2021)
19-4792701-G-A		not specified	Uncertain significance (May 23, 2023)
19-4792732-G-C		not specified	Uncertain significance (Feb 22, 2023)
19-4792800-C-T		not specified	Uncertain significance (Apr 04, 2024)
19-4792875-C-G		not specified	Uncertain significance (May 30, 2024)
19-4792884-C-G		not specified	Uncertain significance (Jul 11, 2023)
19-4793022-T-C		not specified	Uncertain significance (May 05, 2023)
19-4793091-T-G		not specified	Uncertain significance (May 25, 2023)
19-4793196-G-A		not specified	Uncertain significance (Jun 09, 2022)
19-4793214-A-C		not specified	Uncertain significance (Dec 19, 2022)
19-4793215-G-A		not specified	Uncertain significance (Jan 31, 2022)
19-4793307-C-T		not specified	Uncertain significance (Sep 21, 2023)
19-4793425-G-A		not specified	Uncertain significance (Mar 14, 2023)
19-4793464-C-G		not specified	Uncertain significance (Nov 18, 2022)
19-4793477-G-A		not specified	Uncertain significance (Apr 25, 2022)
19-4793523-A-G		not specified	Uncertain significance (Oct 06, 2021)
19-4793530-C-T		not specified	Uncertain significance (Apr 25, 2022)
19-4793575-C-A		not specified	Uncertain significance (Nov 14, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
FEM1A	protein_coding	protein_coding	ENST00000269856	1	3844

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
8.34e-10	0.154	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.42	311	390	0.797	0.0000248	4267
Missense in Polyphen		93	163.77	0.56786		1837
Synonymous	0.0475	184	185	0.996	0.0000131	1441
Loss of Function	0.407	15	16.8	0.893	8.08e-7	188

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
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 (By similarity). May participate in antiinflammatory signaling via its interaction with PTGER4. {ECO:0000250}.
• Pathway: Post-translational protein modification;Metabolism of proteins;Neddylation (Consensus)

Recessive Scores

• pRec: 0.117

Intolerance Scores

• loftool: 0.590
• rvis_EVS: 0
• rvis_percentile_EVS: 53.73

Haploinsufficiency Scores

• pHI: 0.223
• ghis: 0.521

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.924

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Fem1a
• Phenotype: endocrine/exocrine gland phenotype; growth/size/body region phenotype; immune system phenotype; digestive/alimentary phenotype; neoplasm; mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span)

Gene ontology

• Biological process: protein ubiquitination;post-translational protein modification;negative regulation of inflammatory response;regulation of ubiquitin-protein transferase activity
• Cellular component: cytosol
• Molecular function: ubiquitin-protein transferase activity;EP4 subtype prostaglandin E2 receptor binding