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Protein

Clarin-1

Gene

Clrn1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

May have a role in the excitatory ribbon synapse junctions between hair cells and cochlear ganglion cells and presumably also in analogous synapses within the retina.1 Publication

GO - Biological processi

  • actin filament organization Source: MGI
  • auditory receptor cell development Source: MGI
  • auditory receptor cell stereocilium organization Source: MGI
  • cell motility Source: MGI
  • equilibrioception Source: MGI
  • neuromuscular process controlling balance Source: MGI
  • photoreceptor cell maintenance Source: MGI
  • positive regulation of lamellipodium assembly Source: MGI
  • response to stimulus Source: UniProtKB-KW
  • sensory perception of light stimulus Source: MGI
  • sensory perception of sound Source: MGI
  • visual perception Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Hearing, Sensory transduction, Vision

Names & Taxonomyi

Protein namesi
Recommended name:
Clarin-1
Alternative name(s):
Usher syndrome type-3 protein homolog
Gene namesi
Name:Clrn1
Synonyms:Ush3a
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 3

Organism-specific databases

MGIiMGI:2388124. Clrn1.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei8 – 28HelicalSequence analysisAdd BLAST21
Transmembranei101 – 121HelicalSequence analysisAdd BLAST21
Transmembranei135 – 155HelicalSequence analysisAdd BLAST21
Transmembranei186 – 206HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

  • basal part of cell Source: MGI
  • integral component of membrane Source: UniProtKB-KW
  • lamellipodium Source: MGI
  • microtubule Source: Ensembl
  • microvillus Source: MGI
  • plasma membrane Source: MGI
  • stereocilium Source: MGI
  • trans-Golgi network transport vesicle Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002746951 – 232Clarin-1Add BLAST232

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi48N-linked (GlcNAc...)Sequence analysis1
Glycosylationi184N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

PRIDEiQ8K445.

PTM databases

iPTMnetiQ8K445.
PhosphoSitePlusiQ8K445.

Expressioni

Gene expression databases

BgeeiENSMUSG00000043850.
CleanExiMM_CLRN1.
ExpressionAtlasiQ8K445. baseline and differential.
GenevisibleiQ8K445. MM.

Structurei

3D structure databases

ProteinModelPortaliQ8K445.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the clarin family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

GeneTreeiENSGT00850000132319.
HOGENOMiHOG000060265.
HOVERGENiHBG061269.
InParanoidiQ8K445.
OMAiQYGLFHG.
OrthoDBiEOG091G0H1F.
PhylomeDBiQ8K445.
TreeFamiTF331875.

Family and domain databases

InterProiIPR026748. Clarin.
[Graphical view]
PANTHERiPTHR31548. PTHR31548. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8K445-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MPSQQKKIIF CMAGVLSFLC ALGVVTAVGT PLWVKATILC KTGALLVNAS
60 70 80 90 100
GKELDKFMGE MQYGLFHGEG VRQCGLGARP FRFSFFPDLV QAIPVSIHIN
110 120 130 140 150
IILFSMILVV LTMVGTAFFM YNAFGKPFET LHGPLGLYLV SFISGSCGCL
160 170 180 190 200
VMILFASEVK VHRLSEKIAN FKEGTYAYRT QNENYTTSFW VVFICFFVHF
210 220 230
LNGLLIRLAG FQFPFTKSKE TETTNVASDL MY
Length:232
Mass (Da):25,804
Last modified:October 1, 2002 - v1
Checksum:i6B782144A070DB3F
GO
Isoform 2 (identifier: Q8K445-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     84-85: SF → SSRSMKERYSLYEDKGETAV

Show »
Length:250
Mass (Da):27,888
Checksum:i36BBD93F66F7DA7A
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_02287084 – 85SF → SSRSMKERYSLYEDKGETAV in isoform 2. 1 Publication2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF495718 mRNA. Translation: AAM88775.1.
AF495719 mRNA. Translation: AAM88776.1.
CCDSiCCDS38438.1. [Q8K445-1]
CCDS38439.1. [Q8K445-2]
RefSeqiNP_700433.1. NM_153384.3. [Q8K445-2]
NP_700434.1. NM_153385.3. [Q8K445-1]
NP_700435.1. NM_153386.3.
UniGeneiMm.131502.

Genome annotation databases

EnsembliENSMUST00000051408; ENSMUSP00000051738; ENSMUSG00000043850. [Q8K445-1]
ENSMUST00000055636; ENSMUSP00000052254; ENSMUSG00000043850. [Q8K445-2]
GeneIDi229320.
KEGGimmu:229320.
UCSCiuc008pid.2. mouse. [Q8K445-2]
uc008pie.2. mouse. [Q8K445-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF495718 mRNA. Translation: AAM88775.1.
AF495719 mRNA. Translation: AAM88776.1.
CCDSiCCDS38438.1. [Q8K445-1]
CCDS38439.1. [Q8K445-2]
RefSeqiNP_700433.1. NM_153384.3. [Q8K445-2]
NP_700434.1. NM_153385.3. [Q8K445-1]
NP_700435.1. NM_153386.3.
UniGeneiMm.131502.

3D structure databases

ProteinModelPortaliQ8K445.
ModBaseiSearch...
MobiDBiSearch...

PTM databases

iPTMnetiQ8K445.
PhosphoSitePlusiQ8K445.

Proteomic databases

PRIDEiQ8K445.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000051408; ENSMUSP00000051738; ENSMUSG00000043850. [Q8K445-1]
ENSMUST00000055636; ENSMUSP00000052254; ENSMUSG00000043850. [Q8K445-2]
GeneIDi229320.
KEGGimmu:229320.
UCSCiuc008pid.2. mouse. [Q8K445-2]
uc008pie.2. mouse. [Q8K445-1]

Organism-specific databases

CTDi7401.
MGIiMGI:2388124. Clrn1.

Phylogenomic databases

GeneTreeiENSGT00850000132319.
HOGENOMiHOG000060265.
HOVERGENiHBG061269.
InParanoidiQ8K445.
OMAiQYGLFHG.
OrthoDBiEOG091G0H1F.
PhylomeDBiQ8K445.
TreeFamiTF331875.

Miscellaneous databases

PROiQ8K445.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000043850.
CleanExiMM_CLRN1.
ExpressionAtlasiQ8K445. baseline and differential.
GenevisibleiQ8K445. MM.

Family and domain databases

InterProiIPR026748. Clarin.
[Graphical view]
PANTHERiPTHR31548. PTHR31548. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiCLRN1_MOUSE
AccessioniPrimary (citable) accession number: Q8K445
Secondary accession number(s): Q8K446
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 6, 2007
Last sequence update: October 1, 2002
Last modified: November 30, 2016
This is version 83 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.