KLHL31

kelch like family member 31, the group of Kelch like|BTB domain containing

Basic information

Region (hg38): 6:53647916-53665756

Previous symbols: [ "KBTBD1" ]

Links

ENSG00000124743 ∙ NCBI:401265 ∙ OMIM:610749 ∙ HGNC:21353 ∙ Uniprot:Q9H511 ∙ 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 KLHL31 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the KLHL31 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			31			31
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	31	0	0

Variants in KLHL31

This is a list of pathogenic ClinVar variants found in the KLHL31 region.

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

Position	Type	Phenotype	Significance	ClinVar
6-53651681-A-G		not specified	Uncertain significance (Nov 22, 2022)
6-53651708-C-T		not specified	Uncertain significance (Nov 14, 2023)
6-53651794-A-G		not specified	Uncertain significance (Apr 24, 2024)
6-53651807-G-A		not specified	Uncertain significance (Oct 10, 2023)
6-53651878-G-T		not specified	Uncertain significance (Jul 06, 2021)
6-53651920-T-C		not specified	Uncertain significance (Sep 29, 2023)
6-53652043-T-A		not specified	Uncertain significance (Jan 16, 2024)
6-53652071-C-A		not specified	Uncertain significance (Nov 30, 2022)
6-53652083-A-G		not specified	Uncertain significance (Oct 12, 2021)
6-53652118-G-A		not specified	Uncertain significance (Apr 23, 2024)
6-53652181-G-C		not specified	Uncertain significance (Mar 16, 2022)
6-53652221-T-C		not specified	Uncertain significance (Aug 02, 2022)
6-53652258-G-T		not specified	Uncertain significance (Aug 28, 2023)
6-53654162-C-T		not specified	Uncertain significance (Apr 28, 2023)
6-53654303-G-A		not specified	Uncertain significance (Aug 09, 2021)
6-53654318-C-T		not specified	Uncertain significance (Jun 10, 2024)
6-53654329-C-G		not specified	Uncertain significance (Aug 16, 2021)
6-53654350-C-T		not specified	Uncertain significance (Nov 22, 2022)
6-53654399-T-C		not specified	Uncertain significance (Jan 30, 2024)
6-53654402-C-T		not specified	Uncertain significance (Aug 04, 2023)
6-53654408-C-T		not specified	Uncertain significance (May 14, 2024)
6-53654545-A-C		not specified	Uncertain significance (Aug 02, 2021)
6-53654573-A-G		not specified	Uncertain significance (Oct 20, 2023)
6-53654607-A-C		not specified	Uncertain significance (Sep 01, 2021)
6-53654762-T-C		not specified	Uncertain significance (Mar 25, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
KLHL31	protein_coding	protein_coding	ENST00000370905	2	17808

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000393	0.954	125710	0	38	125748	0.000151

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.765	319	360	0.886	0.0000178	4139
Missense in Polyphen		111	139.8	0.79401		1637
Synonymous	0.553	139	148	0.942	0.00000744	1259
Loss of Function	1.87	12	21.3	0.563	0.00000117	242

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000176	0.000176
Ashkenazi Jewish	0.000209	0.000198
East Asian	0.000327	0.000326
Finnish	0.0000462	0.0000462
European (Non-Finnish)	0.000144	0.000141
Middle Eastern	0.000327	0.000326
South Asian	0.000196	0.000196
Other	0.000163	0.000163

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Transcriptional repressor in MAPK/JNK signaling pathway to regulate cellular functions. Overexpression inhibits the transcriptional activities of both the TPA-response element (TRE) and serum response element (SRE). {ECO:0000269|PubMed:18719355}.

Recessive Scores

• pRec: 0.107

Intolerance Scores

• loftool: 0.474
• rvis_EVS: 0.02
• rvis_percentile_EVS: 55.69

Haploinsufficiency Scores

• pHI: 0.277
• hipred: Y
• hipred_score: 0.543
• ghis: 0.543

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.128

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Klhl31
• Phenotype: cellular phenotype; muscle phenotype; growth/size/body region phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan)

Zebrafish Information Network

• Gene name: klhl31
• Affected structure: pericardial cavity
• Phenotype tag: abnormal
• Phenotype quality: edematous