Clrn1
Gene Detail

Symbol Name ID

Clrn1 clarin 1 MGI:2388124

Synonyms

A130002D11Rik, clarin-1, USH3, Ush3a

Feature Type

protein coding gene

Genetic Map

Chromosome 3

28.78 cM
Detailed Genetic Map ± 1 cM


Mapping data(3)

Sequence Map

Chr3:58844028-58885340 bp, - strand From VEGA annotation of GRCm38   41313 bp   ±  kb flank VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer

Mouse Genome Browser

Vertebrate homology

HomoloGene:17738  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 zebrafish

Gene Tree: Clrn1

Human homologs

Human Homolog		CLRN1, clarin 1
NCBI Gene ID		7401
neXtProt AC		NX_P58418
Human Synonyms		RP61, USH3, USH3A
Human Chr (Location)		3q25; chr3:150643950-150690786 (-)  GRCh37.p10
Disease Associations		(3) Diseases Associated with Human CLRN1

Alleles and phenotypes

All alleles(4) : Targeted(4)
 

Mice homozygous for a null allele exhibit progressive hearing loss and loss of balance associated with defects in outer hair cells and supporting cells.

 
Human Diseases Modeled Using Mouse Clrn1 (1)    Alleles Annotated to Human Diseases(2)   

Gene Ontology (GO) classifications

All GO classifications: (18 annotations)

Process	actin filament organization, auditory receptor cell development, ...
Component	integral to membrane, lamellipodium, ...

This is a GO Consortium Reference Genome Project gene.
External Resources: FuncBase

Expression

Literature Summary: (4 records)
Data Summary: Results (18)    Tissues (8)   
Theiler Stages: 26, 28

Assay Type	Results
Immunohistochemistry	13
Western blot	3
RT-PCR	2

cDNA source data(7)
External Resources: Allen Institute   GEO   ArrayExpress

Molecular reagents

All nucleic(8) cDNA(7) Primer pair(1)
Microarray probesets(2)

Other database links

VEGA Gene Model	OTTMUSG00000031611 (Evidence)
Ensembl Gene Model	ENSMUSG00000043850 (Evidence)
Entrez Gene	229320 (Evidence)
UniGene	131502
DFCI	TC1587887, TC1594172, TC1594654, TC1731237
DoTS	DT.101368696, DT.91446623, DT.94254507, DT.99839684
NIA Mouse Gene Index	U024083
Consensus CDS Project	CCDS17369.1, CCDS38438.1, CCDS38439.1
International Mouse Knockout Project Status	Clrn1

Sequences

Length	Strain/Species
genomic	OTTMUSG00000031611	VEGA Gene Model | MGI Sequence Detail	41313	C57BL/6J
transcript	OTTMUST00000078294	VEGA | MGI Sequence Detail	3083	Not Applicable
polypeptide	OTTMUSP00000041625	VEGA | MGI Sequence Detail	250	Not Applicable

All sequences(47) RefSeq(6) UniProt(4)

Polymorphisms

SNPs(217 from dbSNP Build 128)

Protein-related information

Resource	ID	Description
InterPro	IPR026748	Clarin
Protein Ontology	PR:000005605	clarin-1

References

(Earliest) J:78872 Fields RR, et al., Usher Syndrome Type III: Revised Genomic Structure of the USH3 Gene and Identification of Novel Mutations. Am J Hum Genet. 2002 Sep;71(3):607-17
(Latest) J:186316 Geng R, et al., The Mechanosensory Structure of the Hair Cell Requires Clarin-1, a Protein Encoded by Usher Syndrome III Causative Gene. J Neurosci. 2012 Jul 11;32(28):9485-9498
All references(31)

Other accession IDs

MGI:2442622