KLHL28

kelch like family member 28, the group of BTB domain containing|Kelch like

Basic information

Region (hg38): 14:44924323-45042322

Previous symbols: [ "BTBD5" ]

Links

ENSG00000179454 ∙ NCBI:54813 ∙ ∙ HGNC:19741 ∙ Uniprot:Q9NXS3 ∙ 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 KLHL28 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KLHL28 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	2		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	26	2	0

Variants in KLHL28

This is a list of pathogenic ClinVar variants found in the KLHL28 region.

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

Position	Type	Phenotype	Significance	ClinVar
14-44929063-A-G		not specified	Uncertain significance (Jan 03, 2024)
14-44929089-G-A		not specified	Uncertain significance (Jul 06, 2021)
14-44931354-G-A		not specified	Uncertain significance (Aug 03, 2022)
14-44931366-T-C		not specified	Uncertain significance (Dec 09, 2023)
14-44931401-C-T		not specified	Uncertain significance (Nov 14, 2023)
14-44931462-C-A		not specified	Uncertain significance (Oct 05, 2022)
14-44931534-G-A		not specified	Uncertain significance (Oct 06, 2021)
14-44934172-G-A		not specified	Uncertain significance (Jan 31, 2024)
14-44934172-G-T		not specified	Uncertain significance (Aug 02, 2021)
14-44934223-T-C		not specified	Uncertain significance (Nov 17, 2023)
14-44934323-G-T		not specified	Uncertain significance (Nov 09, 2021)
14-44934364-G-A		not specified	Uncertain significance (Feb 23, 2023)
14-44934370-G-T		not specified	Uncertain significance (May 24, 2024)
14-44934416-T-G		not specified	Uncertain significance (Jun 16, 2023)
14-44934476-C-T		not specified	Uncertain significance (Jan 17, 2023)
14-44934503-T-C		not specified	Uncertain significance (Feb 23, 2023)
14-44945054-G-C		not specified	Uncertain significance (May 09, 2023)
14-44945187-G-A		not specified	Uncertain significance (May 30, 2023)
14-44945261-C-T		not specified	Uncertain significance (Sep 22, 2023)
14-44945337-C-A		not specified	Uncertain significance (Dec 22, 2023)
14-44945360-A-C		not specified	Uncertain significance (May 09, 2024)
14-44945369-T-C		not specified	Uncertain significance (Dec 11, 2023)
14-44945396-T-C		not specified	Uncertain significance (Sep 22, 2023)
14-44945480-C-T		not specified	Likely benign (Oct 26, 2021)
14-44945499-C-T		not specified	Uncertain significance (Jun 17, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KLHL28	protein_coding	protein_coding	ENST00000396128	4	118004

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0237	0.976	125726	0	9	125735	0.0000358

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	2.20	212	323	0.655	0.0000171	3749
Missense in Polyphen		54	103.87	0.51986		1184
Synonymous	-0.522	121	114	1.06	0.00000617	1122
Loss of Function	3.03	7	22.5	0.311	0.00000130	268

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000904	0.0000904
Ashkenazi Jewish	0.00	0.00
East Asian	0.000109	0.000109
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.0000266	0.0000264
Middle Eastern	0.000109	0.000109
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Intolerance Scores

• loftool: 0.200
• rvis_EVS: 0.2
• rvis_percentile_EVS: 67.19

Haploinsufficiency Scores

• pHI: 0.234
• hipred: Y
• hipred_score: 0.625
• ghis: 0.571

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.827

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Klhl28