Expression of CLRN1 in cancer - Summary - The Human Protein Atlas

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CLRN1

TISSUE

CELL

PATHOLOGY

PATHOLOGY ATLAS

GENE/PROTEIN

Antibody validation

Dictionary


Level of antibody staining/expression
	High Medium Low Not detected

GENERAL INFORMATION
Gene name	CLRN1
Gene description	Clarin 1
Protein class	Disease related genes Potential drug targets Predicted intracellular proteins Predicted membrane proteins Transporters
Predicted localization	Intracellular,Membrane
Number of transcripts	5
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HUMAN PROTEIN ATLAS INFORMATION

RNA category

TCGA (cancer tissue):	Not detected
HPA (cell line):	Cell line enriched (NTERA-2)
HPA (normal tissue):	Tissue enhanced (adrenal gland, duodenum)

Protein evidence

Evidence at protein level

Protein expression
normal tissue

Estimation of protein expression could not be performed. View primary data.

ANTIBODY IHC RELIABILITY
Data reliability description	RNA-based expert annotation gave inconclusive results. Pending external verification.
Reliability score	Uncertain based on 1 antibody. HPA054636
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PROGNOSTIC SUMMARY
Gene product is not prognostic.
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RNA EXPRESSION OVERVIEW
TCGA dataset RNA cancer category: Not detected

PROTEIN EXPRESSION

Colorectal cancer

Prostate cancer

STAINING SUMMARY

HPA054636

GENE INFORMATION
Gene name	CLRN1 (HGNC Symbol)
Synonyms	RP61, USH3, USH3A
Description	Clarin 1 (HGNC Symbol)
Entrez gene summary	This gene encodes a protein that contains a cytosolic N-terminus, multiple helical transmembrane domains, and an endoplasmic reticulum membrane retention signal, TKGH, in the C-terminus. The encoded protein may be important in development and homeostasis of the inner ear and retina. Mutations within this gene have been associated with Usher syndrome type IIIa. Multiple transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
Chromosome	3
Cytoband	q25.1
Chromosome location (bp)	150926163 - 150972999
Protein evidence	Evidence at protein level (all genes)
Ensembl	ENSG00000163646 (version 83.38)
Entrez gene	7401
UniProt	P58418 (UniProt - Evidence at protein level)
neXtProt	NX_P58418
Antibodypedia	CLRN1 antibodies

PROTEIN BROWSER

CLRN1-001	CLRN1-002	CLRN1-003	CLRN1-005	CLRN1-006

PROTEIN INFORMATION
Splice variant	UniProt	Protein class	Gene ontology	Length & mass	Signal peptide (predicted)	Transmembrane regions (predicted)
CLRN1-001 ENSP00000322280 ENST00000327047	P58418 [Direct mapping] Clarin-1 Show all	Transporters Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 3TM proteins predicted by MDM Disease related genes Potential drug targets Show all	GO:0005886 [plasma membrane] GO:0005902 [microvillus] GO:0007015 [actin filament organization] GO:0007601 [visual perception] GO:0007605 [sensory perception of sound] GO:0010592 [positive regulation of lamellipodium assembly] GO:0016021 [integral component of membrane] GO:0030027 [lamellipodium] GO:0045494 [photoreceptor cell maintenance] GO:0048870 [cell motility] GO:0050896 [response to stimulus] GO:0050953 [sensory perception of light stimulus] GO:0050957 [equilibrioception] Show all	232 aa 25.7 kDa	No	3
CLRN1-002 ENSP00000419244 ENST00000485607	C9JWF3 [Direct mapping] Clarin-1 Show all	SPOCTOPUS predicted membrane proteins Predicted intracellular proteins Show all		39 aa 4.2 kDa	No	0
CLRN1-003 ENSP00000295911 ENST00000295911	P58418 [Direct mapping] Clarin-1 Show all	Transporters Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 2TM proteins predicted by MDM Disease related genes Potential drug targets Show all	GO:0005886 [plasma membrane] GO:0005902 [microvillus] GO:0007015 [actin filament organization] GO:0007601 [visual perception] GO:0007605 [sensory perception of sound] GO:0010592 [positive regulation of lamellipodium assembly] GO:0016021 [integral component of membrane] GO:0030027 [lamellipodium] GO:0045494 [photoreceptor cell maintenance] GO:0048870 [cell motility] GO:0050896 [response to stimulus] GO:0050953 [sensory perception of light stimulus] GO:0050957 [equilibrioception] Show all	120 aa 13.4 kDa	No	2
CLRN1-005 ENSP00000419892 ENST00000468836	C9JYI2 [Direct mapping] Clarin-1 Show all	Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 2TM proteins predicted by MDM Show all	GO:0016021 [integral component of membrane] Show all	115 aa 12.9 kDa	No	2
CLRN1-006 ENSP00000329158 ENST00000328863	P58418 [Direct mapping] Clarin-1 Show all	Transporters Predicted membrane proteins Prediction method-based Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins # TM segments-based 3TM proteins predicted by MDM Disease related genes Potential drug targets Show all	GO:0005874 [microtubule] GO:0005886 [plasma membrane] GO:0005902 [microvillus] GO:0007015 [actin filament organization] GO:0007601 [visual perception] GO:0007605 [sensory perception of sound] GO:0010592 [positive regulation of lamellipodium assembly] GO:0016021 [integral component of membrane] GO:0030027 [lamellipodium] GO:0030140 [trans-Golgi network transport vesicle] GO:0032420 [stereocilium] GO:0045178 [basal part of cell] GO:0045494 [photoreceptor cell maintenance] GO:0048870 [cell motility] GO:0050885 [neuromuscular process controlling balance] GO:0050896 [response to stimulus] GO:0050953 [sensory perception of light stimulus] GO:0050957 [equilibrioception] GO:0060088 [auditory receptor cell stereocilium organization] GO:0060117 [auditory receptor cell development] Show all	245 aa 27.2 kDa	No	3

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The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg foundation.