Gene Gene information from NCBI Gene database.
Entrez ID 10083
Gene name USH1 protein network component harmonin
Gene symbol USH1C
Synonyms (NCBI Gene)
AIE-75DFNB18DFNB18ANY-CO-37NY-CO-38PDZ-45PDZ-73PDZ-73/NY-CO-38PDZ73PDZD7Cush1cpst
Chromosome 11
Chromosome location 11p15.1
Summary This gene encodes a scaffold protein that functions in the assembly of Usher protein complexes. The protein contains PDZ domains, a coiled-coil region with a bipartite nuclear localization signal and a PEST degradation sequence. Defects in this gene are t
SNPs SNP information provided by dbSNP.
66
SNP ID Visualize variation Clinical significance Consequence
rs41282932 G>A,C,T Likely-benign, uncertain-significance, pathogenic Coding sequence variant, intron variant, missense variant, genic downstream transcript variant
rs55983148 CCCCGCCCTCCCTCCCTCCCACCGTCATGGAGTACTGCCCTGCTC>-,CCCCGCCCTCCCTCCCTCCCACCGTCATGGAGTACTGCCCTGCTCCCCCGCCCTCCCTCCCTCCCACCGTCATGGAGTACTGCCCTGCTCCCCCGCCCTCCCTCCCTCCCACCGTCATGGAGTACTGCCCTGCTCCCCCGCCCTCCCTCCCTCCCACCGTCATGGAGTACTGCCCTGCTCCCCCGCCCTCCCTCCCTCCCACCGTCA Benign, conflicting-interpretations-of-pathogenicity Intron variant
rs121908370 G>A,C Pathogenic Coding sequence variant, stop gained, non coding transcript variant, missense variant
rs138138689 C>A,G,T Pathogenic Splice donor variant
rs140869579 G>A,T Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant, non coding transcript variant
miRNA miRNA information provided by mirtarbase database.
39
miRTarBase ID miRNA Experiments Reference
MIRT016712 hsa-miR-335-5p Microarray 18185580
MIRT1477175 hsa-miR-1825 CLIP-seq
MIRT1477176 hsa-miR-185 CLIP-seq
MIRT1477177 hsa-miR-199a-5p CLIP-seq
MIRT1477178 hsa-miR-199b-5p CLIP-seq
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
53
GO ID Ontology Definition Evidence Reference
GO:0000086 Process G2/M transition of mitotic cell cycle IMP 15219944
GO:0001750 Component Photoreceptor outer segment IEA
GO:0001750 Component Photoreceptor outer segment ISS
GO:0001917 Component Photoreceptor inner segment IBA
GO:0001917 Component Photoreceptor inner segment IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
605242 12597 ENSG00000006611
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q9Y6N9
Protein name Harmonin (Antigen NY-CO-38/NY-CO-37) (Autoimmune enteropathy-related antigen AIE-75) (Protein PDZ-73) (Renal carcinoma antigen NY-REN-3) (Usher syndrome type-1C protein)
Protein function Anchoring/scaffolding protein that is a part of the functional network formed by USH1C, USH1G, CDH23 and MYO7A that mediates mechanotransduction in cochlear hair cells. Required for normal development and maintenance of cochlear hair cell bundle
PDB 1X5N , 2KBQ , 2KBR , 2KBS , 2LSR , 3K1R , 5F3X , 5MV8 , 5MV9 , 5XBF , 7X2E
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00595 PDZ 87 165 PDZ domain Domain
PF00595 PDZ 211 290 PDZ domain Domain
PF00595 PDZ 452 537 PDZ domain Domain
Tissue specificity TISSUE SPECIFICITY: Expressed in small intestine, colon, kidney, eye and weakly in pancreas. Expressed also in vestibule of the inner ear. {ECO:0000269|PubMed:12588794}.
Sequence
MDRKVAREFRHKVDFLIENDAEKDYLYDVLRMYHQTMDVAVLVGDLKLVINEPSRLPLFD
AIRPLIPLKHQVEYDQLTPRRSRKLKEVRLDRLHPEGLGLSVRGGLEFGCGLFISHLIKG
GQADSVGLQVGDEIVRINGYSISSCTHEEVINLIRTKKTVSIKVR
HIGLIPVKSSPDEPL
TWQYVDQFVSESGGVRGSLGSPGNRENKEKKVFISLVGSRGLGCSISSGPIQKPGIFISH
VKPGSLSAEVGLEIGDQIVEVNGVDFSNLDHKEAVNVLKSSRSLTISIVA
AAGRELFMTD
RERLAEARQRELQRQELLMQKRLAMESNKILQEQQEMERQRRKEIAQKAAEENERYRKEM
EQIVEEEEKFKKQWEEDWGSKEQLLLPKTITAEVHPVPLRKPKYDQGVEPELEPADDLDG
GTEEQGEQDFRKYEEGFDPYSMFTPEQIMGKDVRLLRIKKEGSLDLALEGGVDSPIGKVV
VSAVYERGAAERHGGIVKGDEIMAINGKIVTDYTLAEAEAALQKAWNQGGDWIDLVV
AVC
PPKEYDDELTFF
Sequence length 552
Interactions View interactions
Associated diseases Disease associations from ClinVar categorized as Causal (Pathogenic/Likely Pathogenic) or Unknown.
734
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Autosomal recessive nonsyndromic hearing loss 18A Pathogenic; Likely pathogenic rs1290295453, rs1246699436, rs1278026061, rs756032457, rs397515359, rs1403777293, rs2133927984, rs766327614, rs2133917820, rs1364331716, rs1850950786, rs1283092935, rs1381315419, rs2497242255, rs1480243085
View all (52 more)
RCV003469561
RCV003462942
RCV003463038
RCV003469737
RCV003469667
RCV003462976
RCV001809331
RCV003471069
RCV003471063
RCV002272821
RCV004571170
RCV003465989
RCV005042936
RCV003464581
RCV005041990
RCV000984011
RCV000763237
RCV000983994
RCV003464633
RCV003328142
RCV003464770
RCV003464775
RCV003464776
RCV003464778
RCV003466497
RCV004573812
RCV004573813
RCV004573814
RCV003328125
RCV000409966
RCV000672216
RCV000673343
RCV000662094
RCV000984229
RCV000670352
RCV000673327
RCV000666443
RCV000669692
RCV000669103
RCV000669773
RCV000672382
RCV000670894
RCV000666800
RCV000666962
RCV000671298
RCV000669702
RCV000668048
RCV000670807
RCV000671259
RCV000669236
RCV000669286
RCV000674242
RCV000666602
RCV000669659
RCV000672856
RCV000674078
RCV000668530
RCV000669682
RCV000669950
RCV000674234
RCV000672492
RCV000668959
RCV000669966
RCV000671948
RCV000770885
RCV000770884
RCV003461077
RCV005047192
RCV005047290
RCV003462789
Hearing impairment Likely pathogenic; Pathogenic rs1850678559 RCV001375345
Hearing loss, autosomal recessive Pathogenic rs397515359, rs377145777 RCV001291493
RCV001291494
Rare genetic deafness Pathogenic rs397515359, rs151045328 RCV000824775
RCV000824776
Unknown Diseases with uncertain, conflicting, or no pathogenic evidence in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Cholangiocarcinoma Benign rs7108947 RCV005902168
Clear cell carcinoma of kidney - rs2133880503 RCV005930097
Familial cancer of breast Benign rs10832795 RCV005890230
Gastric cancer Conflicting classifications of pathogenicity; Uncertain significance rs140869579, rs142801489, rs200322793 RCV005898703
RCV005901502
RCV005913701
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References
Carcinoma Renal Cell Associate 29215599
Colorectal Neoplasms Associate 37535601
Congenital Hereditary and Neonatal Diseases and Abnormalities Associate 28653419
Congenital Hyperinsulinism Associate 23150283
Deafness Associate 17407589, 23251578, 28653419, 28660889, 29434063, 33095980, 33724713
Hearing Loss Associate 23122587, 23150283, 23251578, 32991204, 33095980, 33231815, 34194829
Hearing Loss Sensorineural Associate 20146813, 23251578
Hypothyroidism Congenital Nongoitrous 1 Associate 23150283
Hypoxia Associate 29215599
Immune Dysregulation Polyendocrinopathy Enteropathy X Linked Syndrome Associate 24250806