WDR33

WD repeat domain 33, the group of Cleavage and polyadenylation specific factor subunits|WD repeat domain containing

Basic information

Region (hg38): 2:127701027-127811187

Links

ENSG00000136709 ∙ NCBI:55339 ∙ OMIM:618082 ∙ HGNC:25651 ∙ Uniprot:Q9C0J8 ∙ 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 WDR33 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the WDR33 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			53	1		54
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding			16			16
Total	0	0	69	1	0

Variants in WDR33

This is a list of pathogenic ClinVar variants found in the WDR33 region.

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

Position	Type	Phenotype	Significance	ClinVar
2-127701533-C-T		not specified	Uncertain significance (Dec 28, 2022)
2-127701554-A-T		not specified	Uncertain significance (Dec 16, 2021)
2-127701586-C-T		not specified	Uncertain significance (Jun 10, 2022)
2-127701590-C-A		not specified	Uncertain significance (Jun 04, 2024)
2-127701595-G-A		not specified	Uncertain significance (Aug 01, 2022)
2-127701646-G-C		not specified	Uncertain significance (May 26, 2024)
2-127701785-T-A		not specified	Uncertain significance (Apr 15, 2024)
2-127701836-T-C		not specified	Uncertain significance (Apr 07, 2023)
2-127701872-G-T		not specified	Uncertain significance (Oct 26, 2021)
2-127701875-C-G		not specified	Uncertain significance (Dec 15, 2022)
2-127701907-C-G		not specified	Uncertain significance (Oct 27, 2021)
2-127701943-G-A		not specified	Uncertain significance (Aug 10, 2023)
2-127702015-C-T		not specified	Uncertain significance (Mar 29, 2022)
2-127702021-A-G		not specified	Uncertain significance (Jul 20, 2022)
2-127702034-C-G		not specified	Uncertain significance (Jul 15, 2021)
2-127702075-G-A		not specified	Uncertain significance (Apr 17, 2023)
2-127702076-C-T		not specified	Uncertain significance (Jan 31, 2022)
2-127702105-G-A		not specified	Uncertain significance (Feb 07, 2023)
2-127702150-G-A		not specified	Uncertain significance (Oct 10, 2023)
2-127706327-C-T		not specified	Uncertain significance (Jan 10, 2022)
2-127706343-C-T		not specified	Uncertain significance (Sep 29, 2023)
2-127706366-G-A		not specified	Uncertain significance (Jul 06, 2021)
2-127706411-C-T		not specified	Uncertain significance (Nov 20, 2023)
2-127706412-G-A		not specified	Uncertain significance (Mar 07, 2023)
2-127706507-C-T		not specified	Uncertain significance (Dec 08, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
WDR33	protein_coding	protein_coding	ENST00000322313	21	110166

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
1.00	0.00000306	125736	0	12	125748	0.0000477

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	3.90	485	795	0.610	0.0000452	8715
Missense in Polyphen		55	86.799	0.63365		804
Synonymous	1.14	243	267	0.911	0.0000152	2666
Loss of Function	7.23	10	79.6	0.126	0.00000532	717

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.000397	0.000397
East Asian	0.0000544	0.0000544
Finnish	0.00	0.00
European (Non-Finnish)	0.0000353	0.0000352
Middle Eastern	0.0000544	0.0000544
South Asian	0.000131	0.0000980
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Essential for both cleavage and polyadenylation of pre- mRNA 3' ends. {ECO:0000269|PubMed:19217410}.
• Pathway: mRNA surveillance pathway - Homo sapiens (human);Gene expression (Transcription);RNA Polymerase II Transcription;Metabolism of RNA;Processing of Intronless Pre-mRNAs;Processing of Capped Intronless Pre-mRNA;Cleavage of Growing Transcript in the Termination Region ;RNA Polymerase II Transcription Termination;mRNA Splicing - Major Pathway;Transport of Mature mRNA Derived from an Intronless Transcript;Transport of Mature mRNAs Derived from Intronless Transcripts;mRNA Splicing;mRNA 3,-end processing;Transport of Mature Transcript to Cytoplasm;Processing of Capped Intron-Containing Pre-mRNA (Consensus)

Recessive Scores

• pRec: 0.113

Intolerance Scores

• loftool: 0.0832
• rvis_EVS: -0.81
• rvis_percentile_EVS: 12.05

Haploinsufficiency Scores

• pHI: 0.172
• hipred: Y
• hipred_score: 0.601
• ghis: 0.652

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: E
• gene_indispensability_pred: E
• gene_indispensability_score: 0.798

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Wdr33

Zebrafish Information Network

• Gene name: wdr33
• Affected structure: head
• Phenotype tag: abnormal
• Phenotype quality: decreased size

Gene ontology

• Biological process: mRNA splicing, via spliceosome;postreplication repair;termination of RNA polymerase II transcription;mRNA polyadenylation;mRNA export from nucleus;spermatogenesis;mRNA 3'-end processing
• Cellular component: fibrillar center;collagen trimer;nucleus;nucleoplasm;mRNA cleavage and polyadenylation specificity factor complex
• Molecular function: RNA binding