WDR88

WD repeat domain 88, the group of WD repeat domain containing

Basic information

Region (hg38): 19:33132090-33175799

Previous symbols: [ "PQWD" ]

Links

ENSG00000166359 ∙ NCBI:126248 ∙ ∙ HGNC:26999 ∙ Uniprot:Q6ZMY6 ∙ 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 WDR88 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the WDR88 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			22			22
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	22	0	0

Variants in WDR88

This is a list of pathogenic ClinVar variants found in the WDR88 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-33132176-T-C		not specified	Uncertain significance (Jul 30, 2024)
19-33132248-G-A		not specified	Uncertain significance (Jun 17, 2024)
19-33132260-G-A		not specified	Uncertain significance (Aug 08, 2022)
19-33132328-C-G		not specified	Uncertain significance (Nov 02, 2023)
19-33137706-G-C		not specified	Uncertain significance (Jan 04, 2024)
19-33137707-C-T		not specified	Uncertain significance (Jun 18, 2021)
19-33137718-C-A		not specified	Uncertain significance (Feb 26, 2024)
19-33137767-G-C		not specified	Uncertain significance (Sep 14, 2022)
19-33147669-G-T		not specified	Uncertain significance (Oct 07, 2024)
19-33147670-A-G		not specified	Uncertain significance (Oct 07, 2024)
19-33148845-T-G		not specified	Uncertain significance (Nov 10, 2022)
19-33148862-A-G		not specified	Uncertain significance (Feb 15, 2023)
19-33148880-G-A		not specified	Uncertain significance (Apr 22, 2024)
19-33151223-A-T		not specified	Uncertain significance (Sep 02, 2024)
19-33151292-C-T		not specified	Uncertain significance (Aug 05, 2024)
19-33156366-A-G		not specified	Uncertain significance (Feb 05, 2024)
19-33156503-C-T		not specified	Uncertain significance (Jan 04, 2024)
19-33160432-G-A		not specified	Uncertain significance (Aug 09, 2021)
19-33160440-G-C		not specified	Uncertain significance (Sep 07, 2022)
19-33164220-T-A		not specified	Uncertain significance (Sep 10, 2024)
19-33164248-A-G		not specified	Uncertain significance (Feb 09, 2022)
19-33172349-A-G		not specified	Uncertain significance (Nov 17, 2022)
19-33175464-C-G		not specified	Uncertain significance (Dec 19, 2022)
19-33175472-G-C		not specified	Uncertain significance (Sep 14, 2021)
19-33175480-G-C		not specified	Uncertain significance (Jun 26, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
WDR88	protein_coding	protein_coding	ENST00000355868	11	43706

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.54e-8	0.619	125712	0	36	125748	0.000143

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.960	235	280	0.839	0.0000161	3103
Missense in Polyphen		71	86.988	0.8162		1085
Synonymous	1.27	107	125	0.856	0.00000890	909
Loss of Function	1.19	15	20.9	0.718	9.55e-7	245

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000623	0.000623
Ashkenazi Jewish	0.0000992	0.0000992
East Asian	0.000218	0.000217
Finnish	0.00	0.00
European (Non-Finnish)	0.0000529	0.0000527
Middle Eastern	0.000218	0.000217
South Asian	0.000196	0.000196
Other	0.000165	0.000163

dbNSFP

Source: dbNSFP

Intolerance Scores

• loftool: 0.750
• rvis_EVS: 0.58
• rvis_percentile_EVS: 82.17

Haploinsufficiency Scores

• pHI: 0.0605
• hipred: N
• hipred_score: 0.146

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.573

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Wdr88