LENG8

leukocyte receptor cluster member 8

Basic information

Region (hg38): 19:54449190-54462016

Links

ENSG00000167615 ∙ NCBI:114823 ∙ OMIM:616575 ∙ HGNC:15500 ∙ Uniprot:Q96PV6 ∙ 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 LENG8 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the LENG8 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				9	1	10
missense			43	1	3	47
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region				1		1
non coding				1	1	2
Total	0	0	43	11	5

Variants in LENG8

This is a list of pathogenic ClinVar variants found in the LENG8 region.

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

Position	Type	Phenotype	Significance	ClinVar
19-54451370-G-A		not specified	Uncertain significance (Aug 17, 2021)
19-54452146-C-T		not specified	Uncertain significance (Dec 21, 2021)
19-54452156-C-T		LENG8-related disorder	Likely benign (Nov 11, 2019)
19-54452218-C-T		not specified	Uncertain significance (Apr 09, 2024)
19-54452223-G-A		not specified	Likely benign (Aug 22, 2023)
19-54452245-A-G		not specified	Uncertain significance (Mar 07, 2023)
19-54452248-G-T		not specified	Uncertain significance (Feb 05, 2024)
19-54452661-A-G		not specified	Uncertain significance (Dec 21, 2022)
19-54452692-G-C		LENG8-related disorder	Benign (Jul 10, 2019)
19-54453550-T-C		not specified	Uncertain significance (Oct 20, 2023)
19-54453627-G-A		not specified	Uncertain significance (Aug 12, 2021)
19-54454442-G-A		not specified	Uncertain significance (Jul 09, 2021)
19-54454470-C-T		not specified	Uncertain significance (Jan 16, 2024)
19-54454515-A-T		not specified	Uncertain significance (Apr 28, 2023)
19-54454560-G-C		not specified	Uncertain significance (Apr 25, 2022)
19-54454562-A-C		not specified	Uncertain significance (Aug 10, 2021)
19-54454597-C-T		LENG8-related disorder	Likely benign (Jul 17, 2019)
19-54454598-G-A		not specified	Uncertain significance (Dec 08, 2023)
19-54454634-G-A		not specified	Uncertain significance (Mar 20, 2024)
19-54454638-C-G		not specified	Uncertain significance (Jun 24, 2022)
19-54454646-C-T		not specified	Uncertain significance (Jun 28, 2022)
19-54454647-C-A		not specified	Uncertain significance (May 13, 2024)
19-54454969-G-A		not specified	Uncertain significance (Nov 01, 2021)
19-54454996-C-A		not specified	Uncertain significance (May 06, 2022)
19-54455008-C-A		not specified	Uncertain significance (Jan 10, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
LENG8	protein_coding	protein_coding	ENST00000326764	15	13153

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.999	0.000616	125738	0	10	125748	0.0000398

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	1.35	440	527	0.835	0.0000356	5129
Missense in Polyphen		161	225.48	0.71405		2215
Synonymous	-2.80	284	230	1.23	0.0000168	1609
Loss of Function	5.60	6	47.8	0.126	0.00000287	454

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.000273	0.000269
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.0000180	0.0000176
Middle Eastern	0.00	0.00
South Asian	0.0000331	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

Recessive Scores

• pRec: 0.104

Intolerance Scores

• loftool: 0.319
• rvis_EVS: -1.08
• rvis_percentile_EVS: 7.28

Haploinsufficiency Scores

• pHI: 0.146
• hipred: Y
• hipred_score: 0.747
• ghis: 0.534

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: E
• gene_indispensability_pred: E
• gene_indispensability_score: 0.793

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Leng8

Gene ontology

• Cellular component: nucleus
• Molecular function: protein binding