KBTBD4

kelch repeat and BTB domain containing 4, the group of BTB domain containing

Basic information

Region (hg38): 11:47572196-47578976

Previous symbols: [ "BKLHD4" ]

Links

ENSG00000123444 ∙ NCBI:55709 ∙ OMIM:617645 ∙ HGNC:23761 ∙ Uniprot:Q9NVX7 ∙ 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 KBTBD4 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KBTBD4 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				1		1
missense			21			21
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding					2	2
Total	0	0	21	1	2

Variants in KBTBD4

This is a list of pathogenic ClinVar variants found in the KBTBD4 region.

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

Position	Type	Phenotype	Significance	ClinVar
11-47573018-G-A		not specified	Uncertain significance (Oct 17, 2023)
11-47573102-G-C		not specified	Uncertain significance (Aug 22, 2022)
11-47573163-C-A		not specified	Uncertain significance (Jul 27, 2021)
11-47573243-T-G		not specified	Uncertain significance (Apr 19, 2023)
11-47573329-C-A		not specified	Uncertain significance (Aug 12, 2021)
11-47573355-C-T		not specified	Uncertain significance (Apr 20, 2023)
11-47573534-C-T		not specified	Uncertain significance (May 25, 2022)
11-47573660-T-C		not specified	Uncertain significance (Dec 27, 2023)
11-47573700-C-T		not specified	Uncertain significance (Sep 20, 2023)
11-47575618-G-A		not specified	Uncertain significance (Nov 18, 2022)
11-47575636-T-C		not specified	Uncertain significance (Jul 11, 2023)
11-47575690-G-A		not specified	Uncertain significance (Apr 13, 2022)
11-47577419-A-G		not specified	Uncertain significance (May 31, 2023)
11-47577435-G-A		not specified	Uncertain significance (Apr 04, 2024)
11-47577512-T-C		not specified	Uncertain significance (May 31, 2023)
11-47577534-G-C		not specified	Uncertain significance (Apr 26, 2023)
11-47577581-C-T		not specified	Uncertain significance (Nov 08, 2022)
11-47577593-C-G		not specified	Uncertain significance (May 08, 2024)
11-47577629-A-G		not specified	Uncertain significance (Dec 22, 2023)
11-47577755-T-C		not specified	Uncertain significance (Jan 18, 2023)
11-47577757-G-A			Likely benign (May 01, 2022)
11-47577788-C-T		not specified	Uncertain significance (Jul 09, 2021)
11-47577829-C-A		not specified	Uncertain significance (Nov 05, 2021)
11-47578800-A-G			Benign (Jun 14, 2018)
11-47578886-C-T			Benign (Jun 23, 2018)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KBTBD4	protein_coding	protein_coding	ENST00000430070	4	6819

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000291	0.933	125706	0	42	125748	0.000167

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.26	241	303	0.796	0.0000177	3479
Missense in Polyphen		65	87.289	0.74465		991
Synonymous	0.743	108	118	0.913	0.00000643	1082
Loss of Function	1.75	12	20.6	0.583	0.00000118	238

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000497	0.000497
Ashkenazi Jewish	0.0000992	0.0000992
East Asian	0.000217	0.000217
Finnish	0.00	0.00
European (Non-Finnish)	0.000142	0.000141
Middle Eastern	0.000217	0.000217
South Asian	0.000261	0.000261
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.108

Intolerance Scores

• loftool: 0.606
• rvis_EVS: -0.65
• rvis_percentile_EVS: 16.44

Haploinsufficiency Scores

• pHI: 0.380
• hipred: N
• hipred_score: 0.391
• ghis: 0.582

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.153

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Kbtbd4