Gene Gene information from NCBI Gene database.
Entrez ID 222662
Gene name LHFPL tetraspan subfamily member 5
Gene symbol LHFPL5
Synonyms (NCBI Gene)
DFNB67TMHSdJ510O8.8
Chromosome 6
Chromosome location 6p21.31
Summary This gene is a member of the lipoma HMGIC fusion partner (LHFP) gene family, which is a subset of the superfamily of tetraspan transmembrane protein encoding genes. Mutations in this gene result in deafness in humans, and a mutation in a similar gene in m
SNPs SNP information provided by dbSNP.
8
SNP ID Visualize variation Clinical significance Consequence
rs104893975 A>G Pathogenic Coding sequence variant, missense variant
rs104893976 C>T Pathogenic Coding sequence variant, missense variant
rs756030149 ->G Likely-pathogenic Coding sequence variant, frameshift variant
rs762876554 G>T Pathogenic Missense variant, coding sequence variant
rs779841884 C>- Pathogenic Stop gained, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
242
miRTarBase ID miRNA Experiments Reference
MIRT541986 hsa-miR-3146 HITS-CLIP 21572407
MIRT541985 hsa-miR-675-3p HITS-CLIP 21572407
MIRT504315 hsa-miR-5011-5p HITS-CLIP 21572407
MIRT504314 hsa-miR-511-3p HITS-CLIP 21572407
MIRT504307 hsa-miR-574-5p HITS-CLIP 21572407
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
13
GO ID Ontology Definition Evidence Reference
GO:0005515 Function Protein binding IPI 25416956, 25910212, 31515488, 32296183, 33961781
GO:0005886 Component Plasma membrane IBA
GO:0005886 Component Plasma membrane IEA
GO:0006811 Process Monoatomic ion transport IEA
GO:0007605 Process Sensory perception of sound IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
609427 21253 ENSG00000197753
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q8TAF8
Protein name LHFPL tetraspan subfamily member 5 protein (Lipoma HMGIC fusion partner-like 5 protein) (Tetraspan membrane protein of hair cell stereocilia)
Protein function Auxiliary subunit of the mechanotransducer (MET) non-specific cation channel complex located at the tips of the shorter stereocilia of cochlear hair cells and that mediates sensory transduction in the auditory system. The MET complex is composed
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF10242 L_HMGIC_fpl 25 202 Lipoma HMGIC fusion partner-like protein Family
Sequence
Sequence length 219
Interactions View interactions
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
16
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Autosomal recessive non-syndromic intellectual disability Pathogenic rs1554147220 RCV000498363
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Autosomal recessive nonsyndromic hearing loss 67 Pathogenic; Likely pathogenic rs2151070794, rs1445573930, rs779841884, rs104893975, rs1581972457, rs1554147220, rs1060499810, rs762876554 RCV001823221
RCV001809334
RCV000001762
RCV000001763
RCV000001764
View all (3 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Deafness Likely pathogenic; Pathogenic rs753739358 RCV004798846
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Ear malformation Likely pathogenic rs1581972457 RCV001813935
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
AUTOSOMAL RECESSIVE ISOLATED SENSORINEURAL DEAFNESS TYPE DFNB Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CONGENITAL EAR ANOMALY NOS Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
DEAFNESS, AUTOSOMAL RECESSIVE Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
DEAFNESS, AUTOSOMAL RECESSIVE 67 CTD, Disgenet, HPO
CTD, Disgenet, HPO
CTD, Disgenet, HPO
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Autosomal recessive non-syndromic sensorineural deafness type DFNB Non-Syndromic Sensorineural Deafness Orphanet
★☆☆☆☆
Found in Text Mining only
Deafness Deafness Pubtator 29568747, 37930868 Associate
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Deafness Autosomal Recessive Deafness Pubtator 29568747 Associate
★☆☆☆☆
Found in Text Mining only
Deafness, Autosomal Recessive 67 Deafness UNIPROT_DG 16459341, 16752389, 26437881, 28281779
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Deafness, Autosomal Recessive 67 Deafness GENOMICS_ENGLAND_DG 16752389
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Deafness, Autosomal Recessive 67 Deafness CTD_human_DG 30177809
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Deafness, Autosomal Recessive 67 Deafness CLINVAR_DG
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Hearing Loss Hearing loss Pubtator 19888295, 28281779, 30177809 Associate
★☆☆☆☆
Found in Text Mining only
Nonsyndromic Deafness Nonsyndromic Deafness CLINGEN_DG 15905332, 16459341, 16752389, 19102128, 19888295, 21816241, 25467981, 25550511, 26029705, 26437881
★☆☆☆☆
Found in Text Mining only
Nonsyndromic Deafness Nonsyndromic Deafness BEFREE 16752389, 17876667, 21816241, 30177809
★☆☆☆☆
Found in Text Mining only