ANKRD13A

ankyrin repeat domain 13A, the group of Ankyrin repeat domain containing

Basic information

Region (hg38): 12:109999186-110039763

Previous symbols: [ "ANKRD13" ]

Links

ENSG00000076513 ∙ NCBI:88455 ∙ OMIM:615123 ∙ HGNC:21268 ∙ Uniprot:Q8IZ07 ∙ 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 ANKRD13A gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the ANKRD13A 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			27	1		28
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	27	1	0

Variants in ANKRD13A

This is a list of pathogenic ClinVar variants found in the ANKRD13A region.

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

Position	Type	Phenotype	Significance	ClinVar
12-109999716-C-A		not specified	Uncertain significance (Dec 16, 2021)
12-110012033-G-A		not specified	Uncertain significance (Apr 07, 2023)
12-110012096-A-G		not specified	Uncertain significance (Nov 30, 2022)
12-110013164-T-C		not specified	Uncertain significance (May 17, 2023)
12-110016423-C-G		not specified	Uncertain significance (Nov 14, 2023)
12-110018374-G-A		not specified	Uncertain significance (Dec 21, 2022)
12-110018377-G-A		not specified	Uncertain significance (Jul 21, 2021)
12-110018396-G-A		not specified	Uncertain significance (Aug 13, 2021)
12-110018410-C-T		not specified	Uncertain significance (May 21, 2024)
12-110018411-G-A		not specified	Uncertain significance (Apr 19, 2024)
12-110018465-G-A		not specified	Uncertain significance (Nov 17, 2022)
12-110019166-A-G		not specified	Uncertain significance (Feb 03, 2022)
12-110019175-A-G		not specified	Uncertain significance (Nov 07, 2022)
12-110019267-C-T		not specified	Uncertain significance (Oct 26, 2022)
12-110019268-G-A		not specified	Uncertain significance (Oct 07, 2022)
12-110019271-G-A		not specified	Uncertain significance (May 13, 2024)
12-110024092-G-A		not specified	Uncertain significance (Mar 21, 2023)
12-110024111-A-T		not specified	Uncertain significance (Jul 29, 2023)
12-110025806-A-G		not specified	Uncertain significance (Oct 05, 2023)
12-110027746-C-T		not specified	Uncertain significance (Apr 25, 2023)
12-110027764-G-A		not specified	Uncertain significance (Apr 19, 2023)
12-110028533-A-G		not specified	Uncertain significance (May 04, 2022)
12-110028632-A-G		not specified	Uncertain significance (Jan 09, 2024)
12-110029633-T-C		not specified	Uncertain significance (May 11, 2022)
12-110030720-C-T		not specified	Uncertain significance (Jul 13, 2021)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
ANKRD13A	protein_coding	protein_coding	ENST00000261739	15	40578

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.000206	1.00	125718	0	29	125747	0.000115

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.47	257	332	0.774	0.0000186	3899
Missense in Polyphen		90	134.06	0.67134		1633
Synonymous	1.65	102	126	0.813	0.00000740	1085
Loss of Function	3.57	13	36.2	0.359	0.00000199	387

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000212	0.000212
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.0000924	0.0000924
European (Non-Finnish)	0.000117	0.000114
Middle Eastern	0.000109	0.000109
South Asian	0.000131	0.000131
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Ubiquitin-binding protein that specifically recognizes and binds 'Lys-63'-linked ubiquitin. Does not bind 'Lys-48'-linked ubiquitin. Positively regulates the internalization of ligand- activated EGFR by binding to the Ub moiety of ubiquitinated EGFR at the cell membrane. {ECO:0000269|PubMed:22298428}.

Recessive Scores

• pRec: 0.0926

Intolerance Scores

• loftool: 0.692
• rvis_EVS: -0.6
• rvis_percentile_EVS: 18.06

Haploinsufficiency Scores

• pHI: 0.446
• hipred: N
• hipred_score: 0.414
• ghis: 0.597

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.928

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Ankrd13a

Gene ontology

• Cellular component: late endosome;plasma membrane