FBXO2

F-box protein 2, the group of F-boxes other

Basic information

Region (hg38): 1:11637018-11655785

Previous symbols: [ "OCP1" ]

Links

ENSG00000116661 ∙ NCBI:26232 ∙ OMIM:607112 ∙ HGNC:13581 ∙ Uniprot:Q9UK22 ∙ 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 FBXO2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the FBXO2 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 FBXO2

This is a list of pathogenic ClinVar variants found in the FBXO2 region.

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

Position	Type	Phenotype	Significance	ClinVar
1-11648711-C-G		not specified	Uncertain significance (Dec 30, 2024)
1-11648729-G-A		not specified	Uncertain significance (Mar 07, 2023)
1-11648771-C-A		not specified	Uncertain significance (Dec 31, 2024)
1-11648777-C-G		not specified	Uncertain significance (Apr 18, 2023)
1-11648797-C-T		not specified	Uncertain significance (Feb 13, 2024)
1-11648810-C-A		not specified	Uncertain significance (Mar 18, 2024)
1-11648819-T-C		not specified	Uncertain significance (Aug 12, 2021)
1-11649101-C-T		not specified	Uncertain significance (Jul 27, 2024)
1-11649134-C-T		not specified	Uncertain significance (Aug 04, 2024)
1-11649167-C-T		not specified	Uncertain significance (Jan 22, 2025)
1-11649175-A-G		not specified	Uncertain significance (Jan 01, 2025)
1-11649193-T-C		not specified	Uncertain significance (Jan 03, 2024)
1-11649212-T-C		not specified	Uncertain significance (May 18, 2022)
1-11649215-G-A		not specified	Uncertain significance (Jan 27, 2025)
1-11649833-C-T		not specified	Uncertain significance (Jan 02, 2025)
1-11649973-C-T		not specified	Uncertain significance (Dec 23, 2024)
1-11650003-T-C		FBXO2-related disorder	Likely benign (Sep 17, 2019)
1-11650044-T-C		not specified	Uncertain significance (Nov 27, 2023)
1-11650502-G-A		not specified	Uncertain significance (Nov 07, 2024)
1-11650504-T-G		FBXO2-related disorder	Benign (Oct 21, 2019)
1-11650510-A-G		not specified	Uncertain significance (Jan 29, 2025)
1-11650535-C-A		not specified	Uncertain significance (Mar 01, 2023)
1-11650537-C-T		not specified	Uncertain significance (Jan 27, 2022)
1-11650552-C-T		not specified	Uncertain significance (Dec 24, 2024)
1-11650565-C-A		not specified	Uncertain significance (Feb 20, 2025)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
FBXO2	protein_coding	protein_coding	ENST00000354287	6	7419

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000215	0.919	125726	0	17	125743	0.0000676

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.0912	164	167	0.980	0.00000938	1877
Missense in Polyphen		71	71.009	0.99988		747
Synonymous	0.342	72	75.8	0.950	0.00000473	563
Loss of Function	1.58	8	14.5	0.553	6.21e-7	167

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000868	0.0000868
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.000106	0.000105
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Substrate recognition component of a SCF (SKP1-CUL1-F- box protein) E3 ubiquitin-protein ligase complex that mediates the ubiquitination and subsequent proteasomal degradation of target proteins. Involved in the endoplasmic reticulum-associated degradation pathway (ERAD) for misfolded lumenal proteins by recognizing and binding sugar chains on unfolded glycoproteins that are retrotranslocated into the cytosol and promoting their ubiquitination and subsequent degradation. Prevents formation of cytosolic aggregates of unfolded glycoproteins that have been retrotranslocated into the cytosol. Able to recognize and bind denatured glycoproteins, preferentially those of the high-mannose type (By similarity). {ECO:0000250}.
• Pathway: Ubiquitin mediated proteolysis - Homo sapiens (human);Protein processing in endoplasmic reticulum - Homo sapiens (human);er associated degradation (erad) pathway;Post-translational protein modification;Metabolism of proteins;Immune System;Adaptive Immune System;Antigen processing: Ubiquitination & Proteasome degradation;Class I MHC mediated antigen processing & presentation;Neddylation (Consensus)

Haploinsufficiency Scores

• pHI: 0.172
• hipred: Y
• hipred_score: 0.676
• ghis: 0.547

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.805

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Fbxo2
• Phenotype: nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); hearing/vestibular/ear phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Gene ontology

• Biological process: protein polyubiquitination;cellular protein modification process;proteolysis;glycoprotein catabolic process;negative regulation of cell population proliferation;protein ubiquitination;ubiquitin-dependent ERAD pathway;SCF-dependent proteasomal ubiquitin-dependent protein catabolic process;regulation of protein ubiquitination;post-translational protein modification
• Cellular component: cytoplasm;endoplasmic reticulum;cytosol;SCF ubiquitin ligase complex;organelle membrane;dendritic spine
• Molecular function: amyloid-beta binding;ubiquitin-protein transferase activity;protein binding;carbohydrate binding