UBXN7

UBX domain protein 7, the group of UBX domain containing

Basic information

Region (hg38): 3:196347661-196432430

Previous symbols: [ "UBXD7" ]

Links

ENSG00000163960 ∙ NCBI:26043 ∙ OMIM:616379 ∙ HGNC:29119 ∙ Uniprot:O94888 ∙ 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 UBXN7 gene.

• Inborn genetic diseases (9 variants)
• not provided (1 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the UBXN7 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			9			9
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)			1			1
splice region						0
non coding						0
Total	0	0	10	0	0

Variants in UBXN7

This is a list of pathogenic ClinVar variants found in the UBXN7 region.

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

Position	Type	Phenotype	Significance	ClinVar
3-196362308-C-T		not specified	Uncertain significance (Dec 15, 2023)
3-196362315-C-G		not specified	Uncertain significance (Jan 31, 2022)
3-196362528-C-T		not specified	Uncertain significance (Mar 21, 2022)
3-196362570-A-T		not specified	Uncertain significance (Mar 20, 2023)
3-196371927-T-C		not specified	Uncertain significance (Dec 14, 2022)
3-196391923-G-A		not specified	Uncertain significance (Feb 16, 2023)
3-196403018-C-T		not specified	Uncertain significance (Dec 15, 2023)
3-196407247-C-G		not specified	Uncertain significance (Nov 10, 2022)
3-196407309-C-T		not specified	Uncertain significance (Jul 19, 2023)
3-196407331-C-T		not specified	Uncertain significance (Nov 01, 2022)
3-196407387-C-G		not specified	Uncertain significance (Feb 28, 2023)
3-196407394-C-T			Uncertain significance (Sep 13, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
UBXN7	protein_coding	protein_coding	ENST00000296328	11	84813

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.00	0.000118	124781	0	1	124782	0.00000401

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	3.18	126	274	0.459	0.0000148	3216
Missense in Polyphen		14	86.493	0.16186		989
Synonymous	-0.108	96	94.7	1.01	0.00000480	907
Loss of Function	4.70	0	25.7	0.00	0.00000125	316

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)	0.00000883	0.00000883
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Ubiquitin-binding adapter that links a subset of NEDD8- associated cullin ring ligases (CRLs) to the segregase VCP/p97, to regulate turnover of their ubiquitination substrates. {ECO:0000269|PubMed:22537386}.
• Pathway: Post-translational protein modification;Metabolism of proteins;Neddylation (Consensus)

Recessive Scores

• pRec: 0.111

Intolerance Scores

• loftool: 0.0936
• rvis_EVS: -0.21
• rvis_percentile_EVS: 38.58

Haploinsufficiency Scores

• pHI: 0.248
• hipred: Y
• hipred_score: 0.673
• ghis: 0.609

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: K
• gene_indispensability_pred: E
• gene_indispensability_score: 0.801

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Ubxn7

Gene ontology

• Biological process: post-translational protein modification
• Cellular component: nucleoplasm;cytosol;nuclear body;VCP-NPL4-UFD1 AAA ATPase complex
• Molecular function: protein binding;transcription factor binding;ubiquitin protein ligase binding;ubiquitin binding