WIPF2

WAS/WASL interacting protein family member 2

Basic information

Region (hg38): 17:40219304-40284136

Links

ENSG00000171475 ∙ NCBI:147179 ∙ OMIM:609692 ∙ HGNC:30923 ∙ Uniprot:Q8TF74 ∙ 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 WIPF2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the WIPF2 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			25			25
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	25	0	0

Variants in WIPF2

This is a list of pathogenic ClinVar variants found in the WIPF2 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-40256479-C-T		not specified	Uncertain significance (Mar 16, 2022)
17-40260578-G-T		not specified	Uncertain significance (Jan 26, 2023)
17-40260623-A-G		not specified	Uncertain significance (Jul 05, 2022)
17-40260655-C-T		not specified	Uncertain significance (Apr 01, 2024)
17-40262528-C-T		not specified	Uncertain significance (Dec 28, 2022)
17-40262549-A-G		not specified	Uncertain significance (Oct 03, 2022)
17-40262615-G-A		not specified	Uncertain significance (May 25, 2022)
17-40264523-C-T		not specified	Uncertain significance (Jun 17, 2024)
17-40264565-C-T		not specified	Uncertain significance (Aug 04, 2021)
17-40264570-G-A		not specified	Uncertain significance (Jun 19, 2024)
17-40264574-G-C		not specified	Uncertain significance (Feb 28, 2023)
17-40264603-G-T		not specified	Uncertain significance (Sep 26, 2023)
17-40264625-G-A		not specified	Uncertain significance (Nov 20, 2024)
17-40264646-C-T		not specified	Uncertain significance (Jun 28, 2023)
17-40264657-C-T		not specified	Uncertain significance (Mar 02, 2023)
17-40264744-C-A		not specified	Uncertain significance (Aug 12, 2024)
17-40264756-C-G		not specified	Uncertain significance (Nov 08, 2022)
17-40264775-C-T		not specified	Uncertain significance (Mar 15, 2024)
17-40264796-A-G		not specified	Uncertain significance (Sep 06, 2022)
17-40264832-C-T		not specified	Uncertain significance (Oct 10, 2023)
17-40264930-C-T		not specified	Uncertain significance (Oct 01, 2024)
17-40264931-C-T		not specified	Uncertain significance (Feb 17, 2023)
17-40264934-C-T		not specified	Uncertain significance (Aug 04, 2023)
17-40264936-C-T		not specified	Uncertain significance (Apr 18, 2024)
17-40265090-C-T		not specified	Uncertain significance (Feb 08, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
WIPF2	protein_coding	protein_coding	ENST00000323571	7	64833

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.187	0.813	125735	0	11	125746	0.0000437

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.163	263	271	0.972	0.0000156	2757
Missense in Polyphen		86	82.368	1.0441		816
Synonymous	-0.103	105	104	1.01	0.00000584	1028
Loss of Function	3.06	5	19.7	0.254	0.00000152	183

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000289	0.0000289
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000924	0.0000924
European (Non-Finnish)	0.0000447	0.0000439
Middle Eastern	0.00	0.00
South Asian	0.0000993	0.0000980
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Plays an active role in the formation of cell surface protrusions downstream of activated PDGFB receptors. Plays an important role in actin-microspike formation through cooperation with WASL. May cooperate with WASP and WASL to induce mobilization and reorganization of the actin filament system. {ECO:0000269|PubMed:11829459, ECO:0000269|PubMed:12213210}.
• Pathway: Endocytosis - Homo sapiens (human);Signal Transduction;Fcgamma receptor (FCGR) dependent phagocytosis;Innate Immune System;Immune System;RHO GTPases Activate WASPs and WAVEs;RHO GTPase Effectors;Signaling by Rho GTPases;Regulation of actin dynamics for phagocytic cup formation (Consensus)

Intolerance Scores

• loftool: 0.474
• rvis_EVS: 0.02
• rvis_percentile_EVS: 55.45

Haploinsufficiency Scores

• pHI: 0.422
• hipred: Y
• hipred_score: 0.747
• ghis: 0.522

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.727

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Wipf2

Gene ontology

• Biological process: actin cortical patch assembly;endocytosis;actin filament-based movement;Fc-gamma receptor signaling pathway involved in phagocytosis;positive regulation of actin nucleation;actin cortical patch localization
• Cellular component: nucleoplasm;cytosol;actin filament;plasma membrane;actin cortical patch
• Molecular function: protein binding;actin filament binding