ULBP1

UL16 binding protein 1

Basic information

Region (hg38): 6:149963943-149973715

Links

ENSG00000111981 ∙ NCBI:80329 ∙ OMIM:605697 ∙ HGNC:14893 ∙ Uniprot:Q9BZM6 ∙ 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 ULBP1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ULBP1 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	2	3
missense			28	3	4	35
nonsense						0
start loss						0
frameshift					1	1
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	28	4	7

Variants in ULBP1

This is a list of pathogenic ClinVar variants found in the ULBP1 region.

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

Position	Type	Phenotype	Significance	ClinVar
6-149964060-C-T		not specified	Uncertain significance (Aug 11, 2024)
6-149964062-G-T		not specified	Uncertain significance (Dec 28, 2023)
6-149964069-C-G		not specified	Uncertain significance (Jun 18, 2024)
6-149964072-C-G		not specified	Uncertain significance (Oct 01, 2024)
6-149964126-G-A			Benign (Apr 24, 2018)
6-149968655-C-T		not specified	Uncertain significance (Feb 01, 2025)
6-149968670-G-A		not specified	Uncertain significance (Aug 02, 2021)
6-149968698-G-C		not specified	Uncertain significance (Feb 17, 2022)
6-149968731-G-A			Benign (Feb 20, 2018)
6-149968735-A-C		not specified	Uncertain significance (Oct 02, 2023)
6-149968747-T-A		not specified	Uncertain significance (Jun 24, 2022)
6-149968835-T-A		not specified	Uncertain significance (Aug 30, 2021)
6-149968863-A-G		not specified	Likely benign (Mar 07, 2025)
6-149969105-A-G		not specified	Uncertain significance (Dec 07, 2021)
6-149969133-G-A		not specified	Uncertain significance (Sep 27, 2024)
6-149969138-G-A		not specified	Uncertain significance (Jun 07, 2023)
6-149969166-A-G			Benign (Dec 31, 2019)
6-149969175-A-C		not specified	Likely benign (Feb 28, 2024)
6-149969176-G-T		not specified	Uncertain significance (Feb 28, 2024)
6-149969189-G-C		not specified	Uncertain significance (Jun 29, 2022)
6-149969196-A-G		not specified	Uncertain significance (Jun 07, 2023)
6-149969199-A-C		not specified	Uncertain significance (Aug 01, 2024)
6-149969218-T-A			Likely benign (Mar 30, 2018)
6-149969235-A-T			Benign (Mar 30, 2018)
6-149969243-G-C		not specified	Uncertain significance (Dec 22, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ULBP1	protein_coding	protein_coding	ENST00000229708	4	9704

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
6.88e-7	0.283	125419	1	328	125748	0.00131

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-1.22	162	124	1.31	0.00000558	1598
Missense in Polyphen		38	25.007	1.5196		380
Synonymous	-1.93	63	46.3	1.36	0.00000224	462
Loss of Function	0.300	10	11.1	0.903	4.79e-7	129

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0176	0.0175
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000463	0.0000462
European (Non-Finnish)	0.0000882	0.0000879
Middle Eastern	0.00	0.00
South Asian	0.000198	0.000196
Other	0.00131	0.00130

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Binds and activates the KLRK1/NKG2D receptor, mediating natural killer cell cytotoxicity. {ECO:0000269|PubMed:11777960}.
• Pathway: Natural killer cell mediated cytotoxicity - Homo sapiens (human);Immune System;Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell;Adaptive Immune System (Consensus)

Recessive Scores

• pRec: 0.0971

Intolerance Scores

• loftool: 0.796
• rvis_EVS: 0.26
• rvis_percentile_EVS: 70.44

Haploinsufficiency Scores

• pHI: 0.0679
• hipred: N
• hipred_score: 0.139
• ghis: 0.387

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0130

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Ulbp1

Gene ontology

• Biological process: T cell mediated cytotoxicity;immune response;viral process;natural killer cell activation;natural killer cell mediated cytotoxicity;susceptibility to natural killer cell mediated cytotoxicity;regulation of immune response
• Cellular component: extracellular space;endoplasmic reticulum;cytosol;plasma membrane;external side of plasma membrane;actin cytoskeleton;anchored component of plasma membrane
• Molecular function: protein binding;natural killer cell lectin-like receptor binding