EPS8L2

EPS8 like 2

Basic information

Region (hg38): 11:694438-727727

Links

ENSG00000177106 ∙ NCBI:64787 ∙ OMIM:614988 ∙ HGNC:21296 ∙ Uniprot:Q9H6S3 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

• hearing loss, autosomal recessive (Supportive), mode of inheritance: AR
• hearing loss, autosomal recessive 106 (Strong), mode of inheritance: AR
• nonsyndromic genetic hearing loss (Moderate), mode of inheritance: AR
• hearing loss, autosomal recessive 106 (Strong), mode of inheritance: AR

Clinical Genomic Database

Source: CGD

Condition	Inheritance	Intervention Categories	Intervention/Rationale	Manifestation Categories	References
Deafness, autosomal recessive 106	AR	Audiologic/Otolaryngologic	Early recognition and treatment of hearing impairment may improve outcomes, including speech and language development	Audiologic/Otolaryngologic	26282398
Prelingual hearing loss has been described in some (but not all) individuals

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the EPS8L2 gene.

• not_provided (217 variants)
• not_specified (133 variants)
• EPS8L2-related_disorder (27 variants)
• Hearing_loss,_autosomal_recessive_106 (16 variants)
• Meniere_disease (5 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the EPS8L2 gene is commonly pathogenic or not. These statistics are base on transcript: NM_000022772.4. Only rare variants are included in the table.

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.

Effect	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous			2	63		65
missense		1	180	7	1	189
nonsense	2	2	1			5
start loss						0
frameshift	9	2				11
splice donor/acceptor (+/-2bp)		1	1			2
Total	11	6	184	70	1

Highest pathogenic variant AF is 0.00037884997

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
EPS8L2	protein_coding	protein_coding	ENST00000533256	20	33290

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.00000149	1.00	125560	0	107	125667	0.000426

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.799	451	406	1.11	0.0000242	4584
Missense in Polyphen		139	130.46	1.0654		1546
Synonymous	-1.94	214	181	1.18	0.0000118	1355
Loss of Function	3.44	17	40.6	0.418	0.00000199	454

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00139	0.00131
Ashkenazi Jewish	0.000110	0.0000993
East Asian	0.000478	0.000435
Finnish	0.000288	0.000277
European (Non-Finnish)	0.000495	0.000466
Middle Eastern	0.000478	0.000435
South Asian	0.000339	0.000327
Other	0.000524	0.000489

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Stimulates guanine exchange activity of SOS1. May play a role in membrane ruffling and remodeling of the actin cytoskeleton. In the cochlea, is required for stereocilia maintenance in adult hair cells (By similarity). {ECO:0000250|UniProtKB:Q99K30, ECO:0000269|PubMed:14565974}.

Recessive Scores

• pRec: 0.135

Intolerance Scores

• loftool: 0.602
• rvis_EVS: -1.26
• rvis_percentile_EVS: 5.28

Haploinsufficiency Scores

• pHI: 0.209
• hipred: N
• hipred_score: 0.384
• ghis: 0.594

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: N
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.749

Gene Damage Prediction

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

Mouse Genome Informatics

• Gene name: Eps8l2
• Phenotype: hearing/vestibular/ear phenotype; nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan)

Gene ontology

• Biological process: Rho protein signal transduction;sensory perception of sound;regulation of Rho protein signal transduction;positive regulation of ruffle assembly
• Cellular component: cytosol;plasma membrane;vesicle;stereocilium bundle;stereocilium tip;ruffle membrane;protein-containing complex;extracellular exosome
• Molecular function: actin binding;Rho guanyl-nucleotide exchange factor activity;protein binding;Rac guanyl-nucleotide exchange factor activity;cadherin binding