LRRC36

leucine rich repeat containing 36

Basic information

Region (hg38): 16:67326797-67385204

Links

ENSG00000159708 ∙ NCBI:55282 ∙ ∙ HGNC:25615 ∙ Uniprot:Q1X8D7 ∙ 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 LRRC36 gene.

• Inborn genetic diseases (17 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the LRRC36 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			17			17
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	17	0	0

Variants in LRRC36

This is a list of pathogenic ClinVar variants found in the LRRC36 region.

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

Position	Type	Phenotype	Significance	ClinVar
16-67341960-T-C		not specified	Uncertain significance (May 17, 2023)
16-67341963-T-G		not specified	Uncertain significance (Jan 22, 2024)
16-67347509-C-A		not specified	Uncertain significance (Jan 05, 2022)
16-67347566-A-G		not specified	Uncertain significance (Feb 27, 2023)
16-67350276-G-A		not specified	Likely benign (Feb 15, 2023)
16-67363610-A-C		not specified	Uncertain significance (Oct 10, 2023)
16-67365316-G-A		not specified	Uncertain significance (Nov 10, 2021)
16-67367032-C-T		not specified	Uncertain significance (Jan 23, 2023)
16-67367056-C-T		not specified	Uncertain significance (Apr 19, 2023)
16-67367418-C-A		not specified	Uncertain significance (Sep 16, 2021)
16-67367434-G-A		not specified	Uncertain significance (Dec 13, 2022)
16-67370994-G-A		not specified	Uncertain significance (Mar 01, 2023)
16-67371039-C-T		not specified	Uncertain significance (Jul 13, 2021)
16-67371069-G-A		not specified	Uncertain significance (Dec 09, 2023)
16-67371082-C-T		not specified	Uncertain significance (Dec 17, 2023)
16-67371091-G-C		not specified	Uncertain significance (Apr 07, 2022)
16-67375254-C-T		not specified	Uncertain significance (Sep 13, 2023)
16-67375346-C-T		not specified	Uncertain significance (Sep 14, 2023)
16-67376763-C-T		not specified	Uncertain significance (Sep 29, 2022)
16-67376823-G-A		not specified	Uncertain significance (Sep 14, 2022)
16-67376871-T-C		not specified	Uncertain significance (Oct 31, 2022)
16-67378610-G-C		not specified	Uncertain significance (Jan 23, 2024)
16-67378673-G-C		not specified	Uncertain significance (Jan 23, 2024)
16-67382136-A-T		not specified	Uncertain significance (Jan 12, 2024)
16-67382169-A-G		not specified	Uncertain significance (Feb 28, 2024)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
LRRC36	protein_coding	protein_coding	ENST00000329956	14	58406

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
7.73e-12	0.867	125592	0	156	125748	0.000620

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.15	321	384	0.835	0.0000191	4878
Missense in Polyphen		98	127.12	0.77091		1807
Synonymous	1.25	139	159	0.874	0.00000834	1518
Loss of Function	1.87	23	34.9	0.658	0.00000181	453

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00109	0.00109
Ashkenazi Jewish	0.00	0.00
East Asian	0.00229	0.00229
Finnish	0.000324	0.000323
European (Non-Finnish)	0.000486	0.000484
Middle Eastern	0.00229	0.00229
South Asian	0.000774	0.000752
Other	0.000326	0.000326

dbNSFP

Source: dbNSFP

Intolerance Scores

• loftool: 0.960
• rvis_EVS: 0.31
• rvis_percentile_EVS: 72.66

Haploinsufficiency Scores

• pHI: 0.299
• hipred: N
• hipred_score: 0.169
• ghis: 0.410

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.0697

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Lrrc36
• Phenotype: normal phenotype