GPANK1

G-patch domain and ankyrin repeats 1, the group of Ankyrin repeat domain containing|G-patch domain containing

Basic information

Region (hg38): 6:31661228-31666283

Previous symbols: [ "BAT4" ]

Links

ENSG00000204438 ∙ NCBI:7918 ∙ OMIM:142610 ∙ HGNC:13920 ∙ Uniprot:O95872 ∙ 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 GPANK1 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the GPANK1 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			26	1		27
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	26	1	0

Variants in GPANK1

This is a list of pathogenic ClinVar variants found in the GPANK1 region.

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

Position	Type	Phenotype	Significance	ClinVar
6-31662363-C-T		not specified	Uncertain significance (Oct 14, 2023)
6-31662373-T-C		not specified	Uncertain significance (Sep 12, 2023)
6-31662376-C-T		not specified	Uncertain significance (Jan 30, 2024)
6-31662393-C-T		not specified	Uncertain significance (Dec 20, 2021)
6-31662439-A-G		not specified	Uncertain significance (Mar 18, 2024)
6-31662441-C-G		not specified	Uncertain significance (Oct 26, 2022)
6-31662478-T-C		not specified	Uncertain significance (Sep 14, 2022)
6-31662486-G-A		not specified	Uncertain significance (Oct 14, 2023)
6-31662508-G-A		not specified	Uncertain significance (Dec 15, 2022)
6-31662526-C-T		not specified	Uncertain significance (May 10, 2024)
6-31662531-T-C		not specified	Uncertain significance (Sep 07, 2022)
6-31662538-C-T		not specified	Uncertain significance (May 06, 2022)
6-31662542-C-A		not specified	Uncertain significance (Apr 23, 2024)
6-31662543-C-G		not specified	Uncertain significance (Jun 23, 2021)
6-31662564-G-A		not specified	Uncertain significance (Mar 18, 2024)
6-31662615-G-A		not specified	Uncertain significance (Sep 15, 2021)
6-31662645-C-T		not specified	Uncertain significance (May 29, 2024)
6-31662682-C-T		not specified	Uncertain significance (Dec 13, 2022)
6-31663864-G-C		not specified	Uncertain significance (May 14, 2024)
6-31663901-G-A		not specified	Uncertain significance (May 06, 2024)
6-31663971-C-T		not specified	Uncertain significance (Dec 06, 2021)
6-31663985-C-G		not specified	Uncertain significance (Dec 15, 2022)
6-31664063-C-T		not specified	Uncertain significance (Nov 02, 2021)
6-31664075-T-C		not specified	Uncertain significance (Dec 16, 2023)
6-31664159-C-G		not specified	Uncertain significance (Jan 20, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
GPANK1	protein_coding	protein_coding	ENST00000375906	2	5055

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
3.24e-7	0.339	125687	0	61	125748	0.000243

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.424	189	206	0.917	0.0000113	2264
Missense in Polyphen		65	81.067	0.8018		894
Synonymous	1.13	69	82.0	0.841	0.00000441	776
Loss of Function	0.513	11	13.0	0.846	8.27e-7	123

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000516	0.000507
Ashkenazi Jewish	0.00	0.00
East Asian	0.000382	0.000381
Finnish	0.00	0.00
European (Non-Finnish)	0.000310	0.000308
Middle Eastern	0.000382	0.000381
South Asian	0.000165	0.000163
Other	0.000165	0.000163

dbNSFP

Source: dbNSFP

Intolerance Scores

• rvis_EVS: 0.42
• rvis_percentile_EVS: 76.96

Haploinsufficiency Scores

• pHI: 0.0842
• hipred: N
• hipred_score: 0.144
• ghis: 0.424

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.114

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Gpank1
• Phenotype: reproductive system phenotype; cardiovascular system phenotype (the observable morphological and physiological characteristics of the mammalian heart, blood vessels, or circulatory system that are manifested through development and lifespan); endocrine/exocrine gland phenotype; homeostasis/metabolism phenotype

Gene ontology

• Molecular function: nucleic acid binding;protein binding