KLHL11

kelch like family member 11, the group of Kelch like|BTB domain containing

Basic information

Region (hg38): 17:41848518-41865423

Links

ENSG00000178502 ∙ NCBI:55175 ∙ OMIM:619078 ∙ HGNC:19008 ∙ Uniprot:Q9NVR0 ∙ 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 KLHL11 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KLHL11 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			20			20
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	20	1	0

Variants in KLHL11

This is a list of pathogenic ClinVar variants found in the KLHL11 region.

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

Position	Type	Phenotype	Significance	ClinVar
17-41853775-T-C		not specified	Uncertain significance (Dec 06, 2022)
17-41853777-T-C		not specified	Uncertain significance (Jan 23, 2023)
17-41853784-C-A		not specified	Uncertain significance (May 31, 2023)
17-41853784-C-T		not specified	Uncertain significance (Jan 19, 2024)
17-41853830-C-T		not specified	Uncertain significance (Sep 25, 2023)
17-41853847-T-C		not specified	Uncertain significance (Dec 10, 2024)
17-41853852-T-A		not specified	Uncertain significance (Aug 27, 2024)
17-41853886-T-A		not specified	Uncertain significance (Jan 23, 2024)
17-41853891-A-G			Uncertain significance (Oct 02, 2023)
17-41853920-T-C			Likely benign (Feb 01, 2023)
17-41854117-C-T		not specified	Uncertain significance (Jul 16, 2024)
17-41854123-T-C		not specified	Uncertain significance (Jan 23, 2023)
17-41854130-T-G		not specified	Uncertain significance (Feb 15, 2023)
17-41854203-T-C		not specified	Uncertain significance (Sep 04, 2024)
17-41854245-G-A		not specified	Uncertain significance (Nov 07, 2024)
17-41854326-C-T		not specified	Uncertain significance (Jul 10, 2023)
17-41854402-T-C		not specified	Uncertain significance (May 30, 2024)
17-41854599-A-G		not specified	Uncertain significance (Jan 08, 2024)
17-41855307-C-T		not specified	Uncertain significance (Jan 17, 2024)
17-41864937-G-C		not specified	Uncertain significance (Nov 10, 2022)
17-41865063-G-A		not specified	Uncertain significance (Oct 26, 2022)
17-41865091-A-G		not specified	Uncertain significance (May 13, 2024)
17-41865094-A-G		not specified	Uncertain significance (Oct 06, 2021)
17-41865147-G-A		not specified	Uncertain significance (May 13, 2024)
17-41865237-G-A		not specified	Uncertain significance (Sep 14, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KLHL11	protein_coding	protein_coding	ENST00000319121	2	11888

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.201	0.799	125737	0	11	125748	0.0000437

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	3.18	215	392	0.548	0.0000207	4625
Missense in Polyphen		37	90.012	0.41106		1063
Synonymous	0.0512	148	149	0.995	0.00000802	1393
Loss of Function	3.44	6	24.3	0.247	0.00000133	298

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.0000578	0.0000578
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.0000934	0.0000924
European (Non-Finnish)	0.0000532	0.0000527
Middle Eastern	0.00	0.00
South Asian	0.0000342	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Component of a cullin-RING-based BCR (BTB-CUL3-RBX1) E3 ubiquitin-protein ligase complex that mediates the ubiquitination of target proteins, leading most often to their proteasomal degradation. {ECO:0000250}.
• Pathway: Post-translational protein modification;Metabolism of proteins;Immune System;Adaptive Immune System;Antigen processing: Ubiquitination & Proteasome degradation;Class I MHC mediated antigen processing & presentation;Neddylation (Consensus)

Recessive Scores

• pRec: 0.113

Intolerance Scores

• rvis_EVS: -0.16
• rvis_percentile_EVS: 41.91

Haploinsufficiency Scores

• pHI: 0.422
• hipred: Y
• hipred_score: 0.704
• ghis: 0.490

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: S
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.221

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Klhl11

Gene ontology

• Biological process: post-translational protein modification
• Cellular component: cytosol