UBAC1

UBA domain containing 1

Basic information

Region (hg38): 9:135932969-135961373

Previous symbols: [ "UBADC1" ]

Links

ENSG00000130560 ∙ NCBI:10422 ∙ OMIM:608129 ∙ HGNC:30221 ∙ Uniprot:Q9BSL1 ∙ 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 UBAC1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the UBAC1 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			36	1	1	38
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	36	1	1

Variants in UBAC1

This is a list of pathogenic ClinVar variants found in the UBAC1 region.

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

Position	Type	Phenotype	Significance	ClinVar
9-135933431-G-A		not specified	Uncertain significance (Jun 26, 2023)
9-135938291-G-T		not specified	Uncertain significance (Feb 09, 2025)
9-135938297-C-T		not specified	Likely benign (Jan 14, 2025)
9-135938311-T-A		not specified	Uncertain significance (Dec 02, 2024)
9-135938317-A-C		not specified	Uncertain significance (Mar 01, 2024)
9-135938326-G-A		not specified	Uncertain significance (Sep 27, 2021)
9-135938339-G-A		not specified	Uncertain significance (Dec 16, 2022)
9-135938352-C-G		not specified	Uncertain significance (Dec 21, 2024)
9-135938357-C-G		not specified	Uncertain significance (Feb 25, 2025)
9-135945032-G-C		not specified	Uncertain significance (Feb 22, 2025)
9-135945039-C-G		not specified	Uncertain significance (Jul 02, 2024)
9-135945080-G-A		not specified	Uncertain significance (Feb 15, 2023)
9-135945087-C-T		not specified	Uncertain significance (Sep 14, 2022)
9-135945093-T-C		not specified	Uncertain significance (Dec 13, 2024)
9-135945108-T-G		not specified	Uncertain significance (Jul 26, 2021)
9-135945112-G-C		not specified	Uncertain significance (Oct 29, 2021)
9-135945122-G-A		not specified	Uncertain significance (Jun 11, 2024)
9-135945122-G-T		not specified	Uncertain significance (Jan 09, 2025)
9-135945123-C-T		not specified	Uncertain significance (Aug 08, 2022)
9-135945141-C-T		not specified	Uncertain significance (Jul 12, 2022)
9-135945171-C-G		not specified	Uncertain significance (Jan 31, 2024)
9-135945898-T-C		not specified	Likely benign (Oct 26, 2021)
9-135945925-G-A		not specified	Uncertain significance (Sep 03, 2024)
9-135945937-T-G		not specified	Uncertain significance (Jan 17, 2024)
9-135945949-C-T		not specified	Uncertain significance (Dec 02, 2022)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
UBAC1	protein_coding	protein_coding	ENST00000371756	10	28412

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00145	0.992	125729	0	19	125748	0.0000756

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.422	234	253	0.925	0.0000156	2662
Missense in Polyphen		69	77.72	0.88781		777
Synonymous	0.00312	107	107	1.00	0.00000733	784
Loss of Function	2.39	8	19.4	0.413	9.21e-7	231

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000181	0.000181
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.00	0.00
European (Non-Finnish)	0.0000881	0.0000879
Middle Eastern	0.000109	0.000109
South Asian	0.0000327	0.0000327
Other	0.000329	0.000326

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Non-catalytic subunit of the KPC complex that acts as E3 ubiquitin-protein ligase. Required for poly-ubiquitination and proteasome-mediated degradation of CDKN1B during G1 phase of the cell cycle. {ECO:0000269|PubMed:15531880, ECO:0000269|PubMed:15746103}.
• Pathway: Immune System;Adaptive Immune System;Antigen processing: Ubiquitination & Proteasome degradation;Class I MHC mediated antigen processing & presentation (Consensus)

Recessive Scores

• pRec: 0.117

Intolerance Scores

• loftool: 0.362
• rvis_EVS: -0.02
• rvis_percentile_EVS: 52.09

Haploinsufficiency Scores

• pHI: 0.167
• hipred: Y
• hipred_score: 0.699
• ghis: 0.526

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.978

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Ubac1

Gene ontology

• Biological process: protein ubiquitination
• Cellular component: Golgi apparatus;cytosol;plasma membrane;extracellular exosome
• Molecular function: protein binding