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Gene: Pcdh15 (protocadherin related 15) Rattus norvegicus

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Symbol:

Pcdh15

Name:

protocadherin related 15

RGD ID:

1590969

Description:

Predicted to enable cell adhesion molecule binding activity. Involved in response to calcium ion. Predicted to be located in several cellular components, including extracellular space; photoreceptor outer segment; and synapse. Predicted to be active in plasma membrane and stereocilium. Human ortholog(s) of this gene implicated in Usher syndrome type 1D; Usher syndrome type 1F; and autosomal recessive nonsyndromic deafness 23. Orthologous to human PCDH15 (protocadherin related 15); PARTICIPATES IN auditory mechanotransduction pathway; retinitis pigmentosa pathway; INTERACTS WITH alpha-Zearalanol; atrazine; bisphenol A.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC690865; NEWGENE_1590969; protocadherin 15; protocadherin-15; protocadherin-related 15; similar to protocadherin 15

RGD Orthologs

Alliance Orthologs

More Info

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More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	PCDH15 (protocadherin related 15)	HGNC	Ensembl, HomoloGene, Inparanoid, OrthoDB, Panther
Mus musculus (house mouse):	Pcdh15 (protocadherin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Pcdh15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PCDH15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PCDH15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pcdh15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PCDH15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PCDH15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pcdh15 (protocadherin related 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	PCDH15 (protocadherin related 15)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	PCDH15 (protocadherin related 15)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Pcdh15 (protocadherin 15)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	pcdh15a (protocadherin-related 15a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	pcdh15a (protocadherin-related 15a)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	pcdh15b (protocadherin-related 15b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	pcdh15b (protocadherin-related 15b)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	cdh-5	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder)
Caenorhabditis elegans (roundworm):	cdh-5	Alliance	DIOPT (Hieranoid\|OrthoFinder)
Drosophila melanogaster (fruit fly):	Cad99C	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Drosophila melanogaster (fruit fly):	Cad99C	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	pcdh15	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	pcdh15	Alliance	DIOPT (OrthoFinder\|PANTHER)

Is Marker For:

Strains: KCI/Kyo

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	13,996,383 - 15,495,206 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	20	13,999,116 - 15,493,958 (-)	Ensembl				GRCr8
mRatBN7.2	20	13,997,094 - 15,496,446 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	13,963,565 - 15,494,719 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	20	14,715,022 - 15,411,013 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	14,069,984 - 14,766,014 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	14,542,552 - 15,238,564 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	14,952,213 - 15,334,745 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	14,952,213 - 15,334,745 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	20	17,138,580 - 17,521,597 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
Rnor_5.0	20	18,712,995 - 19,021,206 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	20	14,507,804 - 15,240,479 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	20	15,459,406 - 16,139,466 (-)	NCBI		Celera
Cytogenetic Map	20	p12-p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

autosomal recessive nonsyndromic deafness (ISO)

autosomal recessive nonsyndromic deafness 23 (ISO,ISS)

cochlear disease (ISO)

Deafness (IAGP,ISO)

fundus dystrophy (ISO)

genetic disease (ISO)

Hearing Loss (ISO)

Hirschsprung's disease (ISO)

Meniere's disease (ISO)

nonsyndromic deafness (ISO)

Nonsyndromic Sensorineural Hearing Loss (ISO)

optic atrophy (ISO)

retinitis pigmentosa (ISO)

retinitis pigmentosa-deafness syndrome (ISO)

schizophrenia (ISO)

substance-related disorder (ISO)

Usher syndrome (ISO)

Usher syndrome type 1 (ISO)

Usher Syndrome Type 1B (ISO)

Usher syndrome type 1D (ISO)

Usher syndrome type 1F (ISO,ISS)

Usher syndrome type 1G (ISO)

Usher Syndrome, Type ID/F (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

4,4'-sulfonyldiphenol (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

alpha-Zearalanol (EXP)

amosite asbestos (ISO)

antirheumatic drug (ISO)

arsane (ISO)

arsenic atom (ISO)

atrazine (EXP)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

coumarin (ISO)

crocidolite asbestos (ISO)

dimethylarsinic acid (ISO)

ethanol (ISO)

fulvestrant (ISO)

genistein (ISO)

glyphosate (EXP)

hydralazine (ISO)

indinavir (ISO)

lamivudine (ISO)

lidocaine (EXP)

malathion (ISO)

methapyrilene (ISO)

methoxychlor (EXP)

methylarsonic acid (ISO)

mono(2-ethylhexyl) phthalate (ISO)

Monobutylphthalate (EXP)

N-ethyl-N-nitrosourea (ISO)

okadaic acid (ISO)

permethrin (ISO)

Ptaquiloside (ISO)

saquinavir (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

triclosan (ISO)

valproic acid (ISO)

vinclozolin (EXP)

zidovudine (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament organization (IEA,ISO)

adult locomotory behavior (ISO)

adult walking behavior (IEA,ISO)

auditory receptor cell stereocilium organization (IEA,ISO)

cell adhesion (IBA,IEA)

detection of mechanical stimulus involved in equilibrioception (IEA,ISO)

detection of mechanical stimulus involved in sensory perception of sound (IEA,ISO)

equilibrioception (IEA,ISO)

homophilic cell adhesion via plasma membrane adhesion molecules (IEA)

inner ear auditory receptor cell differentiation (IEA,ISO)

inner ear development (IEA,ISO)

inner ear receptor cell stereocilium organization (IEA,ISO)

locomotory behavior (IEA,ISO)

morphogenesis of an epithelium (IEA,ISO)

multicellular organism growth (IEA,ISO)

non-motile cilium assembly (IEA,ISO)

photoreceptor cell maintenance (ISO)

response to calcium ion (IDA)

righting reflex (IEA,ISO)

sensory perception of light stimulus (IEA,ISO)

sensory perception of sound (IEA,ISO)

startle response (IEA,ISO)

visual perception (IEA,ISO)

Cellular Component

cytoplasm (IEA,ISO)

extracellular space (ISO)

membrane (IEA)

photoreceptor outer segment (IEA,ISO)

plasma membrane (IBA,IEA,ISO)

stereocilium (IEA,ISO)

synapse (ISO)

Molecular Function

calcium ion binding (IEA)

cell adhesion molecule binding (IBA)

protein binding (IPI,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

auditory mechanotransduction pathway (ISO)

retinitis pigmentosa pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Mechanotransduction by hair cells: models, molecules, and mechanisms.	Gillespie PG and Muller U, Cell. 2009 Oct 2;139(1):33-44. doi: 10.1016/j.cell.2009.09.010.
3.	Sensing sound: molecules that orchestrate mechanotransduction by hair cells.	Kazmierczak P and Muller U, Trends Neurosci. 2012 Apr;35(4):220-9. doi: 10.1016/j.tins.2011.10.007. Epub 2011 Dec 15.
4.	Characterization of the Kyoto circling (KCI) rat carrying a spontaneous nonsense mutation in the protocadherin 15 (Pcdh15) gene.	Naoi K, etal., Exp Anim. 2009 Jan;58(1):1-10.
5.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
6.	Calcium-dependent binding of HCN1 channel protein to hair cell stereociliary tip link protein protocadherin 15 CD3.	Ramakrishnan NA, etal., J Biol Chem. 2009 Jan 30;284(5):3227-38. doi: 10.1074/jbc.M806177200. Epub 2008 Nov 13.
7.	HCN1 and HCN2 proteins are expressed in cochlear hair cells: HCN1 can form a ternary complex with protocadherin 15 CD3 and F-actin-binding filamin A or can interact with HCN2.	Ramakrishnan NA, etal., J Biol Chem. 2012 Nov 2;287(45):37628-46. doi: 10.1074/jbc.M112.375832. Epub 2012 Sep 4.
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	Photoreceptor degeneration: genetic and mechanistic dissection of a complex trait.	Wright AF, etal., Nat Rev Genet. 2010 Apr;11(4):273-84. doi: 10.1038/nrg2717.

Additional References at PubMed

PMID:5093631	PMID:9653653	PMID:10430593	PMID:10978835	PMID:11124469	PMID:11138007	PMID:11398101	PMID:11487575	PMID:14570705	PMID:15537665	PMID:15811708	PMID:16369489
PMID:16481439	PMID:16679490	PMID:16799054	PMID:16887306	PMID:16962269	PMID:18339676	PMID:21427143	PMID:23217710	PMID:23376485	PMID:26754646

Genomics

Comparative Map Data

Pcdh15
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	13,996,383 - 15,495,206 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	20	13,999,116 - 15,493,958 (-)	Ensembl				GRCr8
mRatBN7.2	20	13,997,094 - 15,496,446 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	13,963,565 - 15,494,719 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	20	14,715,022 - 15,411,013 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	14,069,984 - 14,766,014 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	14,542,552 - 15,238,564 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	14,952,213 - 15,334,745 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	14,952,213 - 15,334,745 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	20	17,138,580 - 17,521,597 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
Rnor_5.0	20	18,712,995 - 19,021,206 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	20	14,507,804 - 15,240,479 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	20	15,459,406 - 16,139,466 (-)	NCBI		Celera
Cytogenetic Map	20	p12-p11	NCBI

PCDH15
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	53,802,771 - 55,627,942 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	53,802,771 - 55,627,942 (-)	Ensembl			hg38	GRCh38
GRCh37	10	55,562,531 - 57,387,702 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	55,250,866 - 56,231,057 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	10	55,250,865 - 56,231,057	NCBI
Celera	10	48,825,500 - 49,824,287 (-)	NCBI		Celera
Cytogenetic Map	10	q21.1	NCBI
HuRef	10	49,544,130 - 50,545,244 (-)	NCBI		HuRef
CHM1_1	10	55,844,015 - 56,842,749 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	54,651,649 - 56,479,356 (-)	NCBI		T2T-CHM13v2.0

Pcdh15
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	72,932,003 - 74,485,663 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	10	72,935,174 - 74,485,569 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	10	73,096,277 - 74,649,831 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	73,099,342 - 74,649,737 (+)	Ensembl			mm10	GRCm38
MGSCv37	10	73,284,615 - 74,112,482 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	10	73,667,153 - 74,076,383 (+)	NCBI		MGSCv36	mm8
Celera	10	74,887,647 - 75,712,367 (+)	NCBI		Celera
Cytogenetic Map	10	B5.3	NCBI
cM Map	10	37.43	NCBI

Pcdh15
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955425	8,428,680 - 8,899,028 (-)	Ensembl
ChiLan1.0	NW_004955425	8,443,523 - 9,203,177 (-)	NCBI	ChiLan1.0	ChiLan1.0

PCDH15
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	8	66,121,235 - 67,901,123 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	66,126,557 - 67,907,741 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	50,452,290 - 52,236,538 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	52,661,035 - 54,456,043 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	52,666,969 - 53,536,611 (-)	Ensembl			panPan2	panpan1.1

PCDH15
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	26	33,426,728 - 34,589,208 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	26	33,719,839 - 34,588,017 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	33,735,217 - 34,473,542 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	35,380,608 - 36,116,590 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	26	35,248,142 - 36,113,521 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	26	33,285,817 - 34,023,503 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	32,872,620 - 33,606,715 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	34,074,758 - 34,812,730 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Pcdh15
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	73,974,985 - 74,439,013 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936910	141,917 - 602,089 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936910	233,800 - 602,145 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PCDH15
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	14	95,530,168 - 96,388,032 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	103,931,584 - 104,873,398 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PCDH15
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	9	75,642,985 - 77,415,370 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	76,726,627 - 77,398,716 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666048	36,564,791 - 38,363,879 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pcdh15
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624791	9,195,902 - 9,990,131 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624791	9,042,311 - 9,992,341 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Variants

Variants in Pcdh15
16640 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	599
Count of miRNA genes:	244
Interacting mature miRNAs:	291
Transcripts:	ENSRNOT00000000744, ENSRNOT00000065007, ENSRNOT00000065482, ENSRNOT00000065549, ENSRNOT00000066040, ENSRNOT00000066687, ENSRNOT00000067633, ENSRNOT00000067698, ENSRNOT00000068735, ENSRNOT00000074818
Prediction methods:	Microtar, Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4889870	Pur30	Proteinuria QTL 30	19	0.005	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	20	8042410	29322208	Rat
1354642	Despr15	Despair related QTL 15		0.0027	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	20	1	24159021	Rat
4889857	Pur27	Proteinuria QTL 27	12.2	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	20	4606607	17617956	Rat
70154	Insul2	Insulin level QTL 2	3.75		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	6691706	17489458	Rat
9590109	Sffal8	Serum free fatty acids level QTL 8	5.32	0.01	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	20	1	29191651	Rat
9590275	Scort15	Serum corticosterone level QTL 15	3.48	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	29191651	Rat
1581577	Pur15	Proteinuria QTL 15	4.38	0.0002	urine total protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	20	8042410	17617956	Rat
6893685	Bw111	Body weight QTL 111	2.7	0.004	body mass (VT:0001259)	body weight (CMO:0000012)	20	1	32578807	Rat
9590092	Insglur9	Insulin/glucose ratio QTL 9	18.38	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	20	11757515	54435887	Rat
1641915	Colcr9	Colorectal carcinoma resistance QTL 9	2.97	0.0024	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	20	1530655	46530655	Rat
2317057	Aia27	Adjuvant induced arthritis QTL 27	2.83		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	20	2892597	26381954	Rat
7387283	Uae44	Urinary albumin excretion QTL 44		0.1712	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	20	1	26123605	Rat
7411668	Foco32	Food consumption QTL 32	8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	36600972	Rat
2305926	Iddm37	Insulin dependent diabetes mellitus QTL 37	6		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	20	1527842	46527842	Rat
1600382	Edcs3	Endometrial carcinoma susceptibility QTL3	3.5	0.003	uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	20	1	25159026	Rat
1558640	Prcs2	Prostate cancer susceptibility QTL 2	3.3		prostate integrity trait (VT:0010571)	percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)	20	4606607	17617956	Rat
8694189	Bw153	Body weight QTL 153	3.13	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	20	1	29191651	Rat
9589155	Insul32	Insulin level QTL 32	6.38	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	20	1	29191651	Rat
7411650	Foco23	Food consumption QTL 23	20.7	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	1	29191651	Rat
7411652	Foco24	Food consumption QTL 24		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	20	11757515	54435887	Rat
2317851	Alcrsp22	Alcohol response QTL 22	3.2	0.05	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	27339237	Rat
1598816	Memor12	Memory QTL 12	2.4		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	20	2606836	47606836	Rat
61432	Cia1	Collagen induced arthritis QTL 1			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	20	3621656	14101050	Rat
1641893	Alcrsp7	Alcohol response QTL 7			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	20	1	27339237	Rat
9590252	Scort12	Serum corticosterone level QTL 12	20.46	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	20	1	36600972	Rat

Markers in Region

D20Rat60

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	20	14,100,222 - 14,100,378 (+)	Marker Load Pipeline
mRatBN7.2	20	14,100,894 - 14,101,050 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	15,050,410 - 15,050,565	NCBI	Rnor6.0
Rnor_5.0	20	17,237,299 - 17,237,454	UniSTS	Rnor5.0
RGSC_v3.4	20	14,605,696 - 14,605,852	RGD	RGSC3.4
RGSC_v3.4	20	14,605,697 - 14,605,852	UniSTS	RGSC3.4
Celera	20	15,551,025 - 15,551,180	UniSTS
RGSC_v3.1	20	14,612,602 - 14,612,758	RGD
FHH x ACI Map	20	6.8999	RGD
FHH x ACI Map	20	6.8999	UniSTS
Cytogenetic Map	20	p12	UniSTS

D20Got15

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	20	14,113,428 - 14,113,687 (+)	Marker Load Pipeline
mRatBN7.2	20	14,114,102 - 14,114,361 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	15,063,616 - 15,063,874	NCBI	Rnor6.0
Rnor_5.0	20	17,250,507 - 17,250,765	UniSTS	Rnor5.0
RGSC_v3.4	20	14,618,968 - 14,619,227	RGD	RGSC3.4
RGSC_v3.4	20	14,618,969 - 14,619,227	UniSTS	RGSC3.4
Celera	20	15,560,527 - 15,560,785	UniSTS
RGSC_v3.1	20	14,625,874 - 14,626,133	RGD
RH 2.0 Map	20	206.1	RGD
Cytogenetic Map	20	p12	UniSTS

D20Got14

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	14,041,517 - 14,041,743 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	14,991,035 - 14,991,260	NCBI	Rnor6.0
Rnor_5.0	20	17,177,790 - 17,178,015	UniSTS	Rnor5.0
RGSC_v3.4	20	14,546,135 - 14,546,361	RGD	RGSC3.4
RGSC_v3.4	20	14,546,136 - 14,546,361	UniSTS	RGSC3.4
RGSC_v3.1	20	14,553,041 - 14,553,267	RGD
RH 2.0 Map	20	210.6	RGD
Cytogenetic Map	20	p12	UniSTS

RH142552

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	14,610,466 - 14,610,747 (-)	MAPPER	mRatBN7.2
Rnor_6.0	20	16,616,952 - 16,617,232	NCBI	Rnor6.0
Rnor_5.0	20	18,798,325 - 18,798,605	UniSTS	Rnor5.0
RGSC_v3.4	20	15,120,682 - 15,120,962	UniSTS	RGSC3.4
Celera	20	16,050,308 - 16,050,588	UniSTS
RH 3.4 Map	20	180.53	UniSTS
Cytogenetic Map	20	p12	UniSTS

RH144278

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	14,265,653 - 14,265,837 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	15,214,790 - 15,214,973	NCBI	Rnor6.0
Rnor_5.0	20	17,401,681 - 17,401,864	UniSTS	Rnor5.0
RGSC_v3.4	20	14,770,572 - 14,770,755	UniSTS	RGSC3.4
Celera	20	15,710,436 - 15,710,619	UniSTS
RH 3.4 Map	20	181.74	UniSTS
Cytogenetic Map	20	p12	UniSTS

AU048858

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	20	14,100,889 - 14,100,983 (+)	MAPPER	mRatBN7.2
Rnor_6.0	20	15,050,405 - 15,050,498	NCBI	Rnor6.0
Rnor_5.0	20	17,237,294 - 17,237,387	UniSTS	Rnor5.0
RGSC_v3.4	20	14,605,692 - 14,605,785	UniSTS	RGSC3.4
Celera	20	15,551,020 - 15,551,113	UniSTS
Cytogenetic Map	20	p12	UniSTS

Related Rat Strains

The following Strains have been annotated to Pcdh15

KCI/Kyo

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
9	9	27	146	49	44	17	25	17	6	150	77	4	125	39	82	27	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001271377	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279549	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279550	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279551	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279552	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279553	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC129350	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC132050	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000067633 ⟹ ENSRNOP00000060829

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,000,094 - 14,824,798 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,002,696 - 14,825,461 (-)	Ensembl
Rnor_6.0 Ensembl	20	14,952,213 - 15,334,745 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000098841 ⟹ ENSRNOP00000084743

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,000,094 - 14,824,798 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 14,700,033 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000100057 ⟹ ENSRNOP00000095831

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,013,161 - 15,493,958 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 15,494,719 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000103718 ⟹ ENSRNOP00000091654

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,000,094 - 15,493,958 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 14,700,033 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000105317 ⟹ ENSRNOP00000085814

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,013,161 - 15,493,958 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 15,494,719 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000109482 ⟹ ENSRNOP00000093215

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,013,161 - 15,493,958 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 15,494,719 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000112877 ⟹ ENSRNOP00000076657

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	13,999,116 - 14,824,798 (-)	Ensembl
mRatBN7.2 Ensembl	20	13,963,565 - 14,825,461 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000117699 ⟹ ENSRNOP00000088506

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,013,161 - 15,493,958 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 15,494,719 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000117858 ⟹ ENSRNOP00000081741

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	20	14,000,094 - 14,824,798 (-)	Ensembl
mRatBN7.2 Ensembl	20	14,014,829 - 15,494,719 (-)	Ensembl

RefSeq Acc Id:

NM_001271377 ⟹ NP_001258306

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	14,000,094 - 14,824,798 (-)	NCBI
mRatBN7.2	20	14,000,759 - 14,825,491 (-)	NCBI
Rnor_6.0	20	14,952,213 - 15,334,745 (-)	NCBI
Rnor_5.0	20	17,138,580 - 17,521,597 (-)	NCBI
Rnor_5.0	20	18,712,995 - 19,021,206 (+)	NCBI
Celera	20	15,459,406 - 16,139,466 (-)	NCBI

Sequence:

show sequence

ATGTCCCCACAGTTTGCTCTGTGGAAGTGTATGCCCCATGGGATCCTCCTTGCCTCACTCTTGA
TAGTCAGCTGGGGCCAATATGATGATGACTGGCAATATGAGGATTGTAAACTAGCTAGGGGAGG
ACCACCAGCTACCATTGTGGCCATTGATGAAGAGAGTCGGAATGGTACAATTCTGGTGGACAAC
ATGTTGATTAAGGGGACTGCCGGAGGACCAGACCCCACCATAGAGCTCTCTTTAAAGGACAACG
TGGACTACTGGGTGTTACTGGACCCCGTTAAGCAGATGCTTTTCCTCAACAGTACCGGAAGAGT
TCTGGATAGAGACCCACCGATGAACATACACTCCATTGTAGTCCAAGTCCAGTGTGTCAACAAG
AAGGTTGGCACAGTGATCTATCATGAAGTACGCATCGTGGTGCGGGACCGGAATGACAACTCAC
CCACATTCAAGCATGAGAGCTACTATGCCACCGTGAATGAGCTCACTCCGGTCGGCACCACAAT
ATTCACGGGGTTTGCGGGAGACAACGGAGCCACAGACATAGACGATGGCCCTAACGGACAGATA
GAATACGTCATTCAGTACAACCCAGAAGATCCGACATCCAATGACACCTTCGAAATTCCACTCA
TGTTGACTGGCAACGTGGTGCTGAGGAAAAGACTCAACTACGAGGATAAGACTCGCTACTACGT
CATCATCCAAGCTAATGACCGTGCACAAAATCTGAATGAGAGGCGAACAACTACTACCACCCTC
ACAGTAGACGTTCTAGATGGAGATGATCTGGGACCAATGTTTCTGCCCTGTGTTCTTGTGCCAA
ATACCCGTGACTGCCGTCCACTCACCTATCAAGCTGCCATTCCTGAACTGAGGACTCCGGAAGA
ACTGAACCCTATTTTGGTGACCCCACCTATCCAAGCCATTGACCAGGACCGAAACATCCAACCA
CCATCTGATCGACCTGGCATCCTCTACTCCATTCTTGTTGGCACCCCTGAGGATTACCCCCGCT
TCCTCCACATGCATCCCAGGACTGCAGAACTCACTCTCCTGGAGCCAGTAAACAGAGACTTCCA
TCAAAAGTTTGATTTGGTTATTAAGGCCGAACAGGACAATGGCCACCCGCTGCCTGCCTTTGCT
AGTCTACACATCGAGATACTGGACGAAAATAATCAGAGTCCATACTTTACAATGCCCAGCTATC
AAGGGTACATTCTGGAATCTGCCCCAGTGGGAGCCACCATTTCTGAGAGCCTGAACTTAACCAC
GCCTCTGAGAATTGTAGCTCTGGACAAAGACATAGAAGACGTGCCACCTGGTGGAGTTCCTACA
AAGGACCCGGAGCTCCACCTTTTCCTGAATGATTACACCTCGGTCTTCACCGTGACACCCACCG
GTATCACCCGCTACCTCACCCTGCTTCAACCTGTGGACAGGGAGGAACAGCAAACCTATACCTT
TCTGATAACAGCGTTCGATGGCGTGCAGGAGAGCGAGCCAGTGGTGGTCAATATCCGAGTGATG
GATGCCAATGACAACACGCCCACCTTCCCTGAGATCTCCTACAATGTCTATGTTTACACGGACA
TGAGTCCCGGGGACAGTGTCATCCAGCTGACTGCAGTGGACGCTGATGAAGGCTCTAACGGGGA
GATCTCCTATGAAATACTAGTGGGCAGCAAGGGAGACTTCGTGATCAACAGGACCACGGGGCTG
GTGAGCATCGCGCCAGGAGTGGAGCTGGTCGTGGGACAGACGTATGCGCTCACGGTACAGGCTT
CGGACAACGCCCCGCCCGCAGAGAGAAGGCACTCCATCTGCACGGTGTACATCGAGGTGCTGCC
TCCCAACAACCAGAGCCCTCCGCGTTTCCCACAGCTGATGTACAGTCTGGAAGTCAGCGAAGCC
ATGAGGATCGGCGCGGTTTTATTAAATCTACAGGCAACTGATCGAGAGGGAGACCCAATCACAT
ATGCCATCGAGAATGGAGACCCTCAGCGAGTTTTTAATCTTTCAGAAACCACAGGGATTCTCAG
CCTAGGGAAGGCTCTAGATCGAGAGAGCACGGACCGCTACATCCTCATCGTCACAGCCTCAGAT
GGCAGGCCAGATGGAACCTCAACTGCCACTGTGAACATAGTGGTGACAGACGTCAATGATAACG
CTCCCGTGTTCGATCCCTATCTGCCCAGGAACCTCTCTGTGGTGGAGGAAGAGGCCAATGCCTT
TGTGGGTCAAGTCCGGGCGACAGACCCAGATGCTGGGATAAATGGCCAAGTGCACTACAGCCTG
GGGAATTTCAACAACCTCTTCCGCATCACGTCCAACGGGAGCATTTACACAGCCGTGAAGCTGA
ACAGGGAAGCCAGGGACCACTATGAACTGGTTGTTGTGGCAACAGATGGAGCTGTACACCCTCG
ACATTCAACTCTGACACTGTACATCAAGGTGTTGGACATTGACGATAACAGCCCTGTTTTTACC
AATTCAACGTACACGGTTGTTGTTGAAGAGAACCTGCCAGCCGGGACCGCCTTCCTTCAAATAG
AGGCCAAGGATGTTGATCTTGGAGCCAATGTGTCCTATCGGATCAGAAGCCCGGAAGTGAAGCA
CCTCTTTGCACTGCATCCATTTACTGGGGAATTGTCTCTTCTGAGGAGTTTGGATTATGAGGCC
TTTCCCGACCAAGAGGCAAGCATCACGTTCTTGGTGGAGGCCTTTGATATTTATGGGACGATGC
CACCCGGTATAGCAACGGTCACAGTAATTGTGAAGGACATGAATGACTACCCTCCGGTGTTTAG
CAAACGCATCTACAAGGGGATGGTGGCTCCAGATGCCGTCAAGGGGACACCAATTACCACTGTT
TATGCTGAAGACGCAGACCCACCAGGGTTGCCAGCAAGTCGGGTGAGGTACCGAGTGGATGATG
TGCAGTTTCCATACCCGGCCAGTATTTTTGACGTAGAGGAAGATTCTGGAAGAGTAATAACCCG
TGTTAATCTTAATGAAGAGCCTACAACAATTTTTAAGCTGGTGGTTGTGGCTTTTGATGATGGT
GAACCTGTGATGTCCAGCAGTGCCACTGTGAGAATTCTTGTCTTACATCCTGGAGAGATCCCAC
GCTTCACCCAAGAGGAATACAGACCTCCTCCTGTGAGCGAGCTTGCTGCCAGAGGGACTGTAGT
AGGCGTCATTTCTGCTGCCGCCATCAATCAGAGCATCGTGTACTCCATTGTGGCAGGAAATGAG
GACGATAAATTTGGAATCAACAATGTCACTGGCGTCATCTATGTGAATTCCCCACTGGATTACG
AGACAAGGACTAGCTATGTGCTCCGGGTGCAAGCAGATTCTCTGGAAGTGGTCCTCGCCAATCT
CCGAGTCCCTTCAAAAAGCAATACAGCTAAGGTGTACATTGAGATTCAGGATGAAAACGATCAC
CCCCCAGTGTTCCAGAAGAAATTCTACATTGGAGGTGTGTCTGAAGACGCGAGGATGTTCACGT
CTGTGCTCAGAGTGAAGGCCACTGACAGGGACACAGGAAATTATAGCGCCATGGCCTACAGACT
CATCATACCACCGATTAAAGAGGGCAAAGAGGGGTTTGTGGTGGAAACATACACGGGGCTCATC
AAGACAGCCATGCTCTTCCACAATATGAGAAGATCCTACTTCAAGTTTCAAGTGATTGCAACCG
ACGACTACGGGAAGGGGTTGAGCGGGAAAGCGGACGTACTGGTCTCCGTGGTCAATCAACTGGA
TATGCAGGTCATTGTCTCCAATGTGCCCCCTACATTAGTGGAAAAGAAGATAGAAGATCTTACA
GAGATTTTGGATCGCTATGTTCAGGAGCAAATTCCTGGTGCCAAAGTTGTTGTAGAGTCCATTG
GTGCCCGGCGCCATGGAGACGCCTTCTCCCTAGAAGACTATAGCAAGTGTGACCTGACCGTCTA
TGCCATCGACCCTCAGACCAACAGAGCCATCGACAGAAATGAGCTTTTTAAGTTCCTGGACGGC
AAACTGCTTGATATCAATAAAGACTTCCAGCCGTATTACGGGGAAGGAGGACGCATCCTGGAGA
TTCGGACTCCCGAAGCAGTGACGAGCATCAAGAAGCGAGGAGAGAGCTTGGGGTACACAGAAGG
GGCCTTGCTGGCCTTGGCCTTCATCATTATCCTCTGCTGCATCCCAGCCATCTTGGTCGTCTTA
GTGAGCTACCGACAATTTAAAGTACGCCAGGCTGAGTGCACGAAGACTGCAAGGATTCAGTCTG
CTATGCCTGCAGCCAAGCCTGCAGCTCCTGTACCTGCTGCGCCCCCACCACCGCCGCCGCCACC
ACCACCAGGAGCACATCTCTATGAAGAACTGGGAGAGAGCGCCATGCATAAGTATGAGATGCCC
CAGTATGGAAGTCGCCGCCGACTGCTGCCACCTGCTGGACAGGAGGAATACGGCGAAGTCATTG
GTGAAGCTGAAGAGGAGTATGAAGAGGAAGAGGTAAGTCCAGAGAAAGTTAAAAAGCCCAAAGT
TGAAATTAGAGAGCCTAGTGAGGAAGAGGTGGTAGTCACCGTTGAGAAGCCACCAGCGGCTGAG
CCCACCTACCCGACGTGGAAGAGAGCCAGGATCTTCCCAATGATCTTTAAGAAAGTCAGGGGTC
TCGCTGAGAAAAGAGGCATTGACCTTGAGGGCGAGGAGTGGAGGAGGCGCCTTGAGGAAGAAGA
CAAGGACTATCTCCAACTGACTCTAGACCAGGAGGAAGCCACGGAGAGCACCGTGGAGTCAGAG
GAGGAGTCCAGCGACTACACGGAATACACAGAAACCGAGTCTGAGTTCAGCGAGTCCGAGACCA
CTGAAGAATCCGAGTCGGAGACCCCATCTGAGGAGGCAGAGGAAAGCTCGACCCCGGAGTCAGA
GGAGTCTGAGTCCACCGAGTCAGAGGGAGAGAAGGCAAGGAAAAACATCGTGCTAGCAAGAAGA
AGACCCGTGGTAGAAGAAATCCAAGAAGTGAAGGGTAAGAAAGAGGAGCCGCCTGTAGAGCAGG
AAGAAGAGCCCCCGGGGGAGGAGGAAGAACGGCCAGAGGAAGGAGAAGAAAGCGAAGCAGCTCC
CATGGATGAATCCACAGACCTGGAGGCTCAGGATGTCCCAGAGGAGGGCAGCGCAGAATCAGCC
TCGGTGGAGAGGGGCGTGGAAAGTGAGGAGGAATCGGAGTCAGAAGTGAGCAGTAGCAGCAGCA
GCAGCAGCAGTGAGAGCCTCTCTGGAGGCCCCTGGGGGTTCCAGGTACCAGAGTATGACAGGAG
GAAGGAGGAAGATGCCAAGAAATCTCCAGGCGCAAACTCCGAAGGATACAACACAGCCCTTTAG

hide sequence

RefSeq Acc Id:

XM_063279549 ⟹ XP_063135619

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	13,996,383 - 15,495,206 (-)	NCBI

RefSeq Acc Id:

XM_063279550 ⟹ XP_063135620

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	13,996,383 - 14,825,493 (-)	NCBI

RefSeq Acc Id:

XM_063279551 ⟹ XP_063135621

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	13,996,383 - 14,825,493 (-)	NCBI

RefSeq Acc Id:

XM_063279552 ⟹ XP_063135622

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	13,996,429 - 15,495,203 (-)	NCBI

RefSeq Acc Id:

XM_063279553 ⟹ XP_063135623

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	20	14,000,714 - 15,464,953 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001258306	(Get FASTA)	NCBI Sequence Viewer
	XP_063135619	(Get FASTA)	NCBI Sequence Viewer
	XP_063135620	(Get FASTA)	NCBI Sequence Viewer
	XP_063135621	(Get FASTA)	NCBI Sequence Viewer
	XP_063135622	(Get FASTA)	NCBI Sequence Viewer
	XP_063135623	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000060829
	ENSRNOP00000060829.4
	ENSRNOP00000076657
	ENSRNOP00000076657.1
	ENSRNOP00000081741.1
	ENSRNOP00000084743
	ENSRNOP00000084743.1
	ENSRNOP00000085814.1
	ENSRNOP00000088506.1
	ENSRNOP00000091654.1
	ENSRNOP00000093215.1
	ENSRNOP00000095831.1

RefSeq Acc Id:	NP_001258306 ⟸ NM_001271377
- Peptide Label:	precursor
- UniProtKB:	F1LXN4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSPQFALWKCMPHGILLASLLIVSWGQYDDDWQYEDCKLARGGPPATIVAIDEESRNGTILVDN MLIKGTAGGPDPTIELSLKDNVDYWVLLDPVKQMLFLNSTGRVLDRDPPMNIHSIVVQVQCVNK KVGTVIYHEVRIVVRDRNDNSPTFKHESYYATVNELTPVGTTIFTGFAGDNGATDIDDGPNGQI EYVIQYNPEDPTSNDTFEIPLMLTGNVVLRKRLNYEDKTRYYVIIQANDRAQNLNERRTTTTTL TVDVLDGDDLGPMFLPCVLVPNTRDCRPLTYQAAIPELRTPEELNPILVTPPIQAIDQDRNIQP PSDRPGILYSILVGTPEDYPRFLHMHPRTAELTLLEPVNRDFHQKFDLVIKAEQDNGHPLPAFA SLHIEILDENNQSPYFTMPSYQGYILESAPVGATISESLNLTTPLRIVALDKDIEDVPPGGVPT KDPELHLFLNDYTSVFTVTPTGITRYLTLLQPVDREEQQTYTFLITAFDGVQESEPVVVNIRVM DANDNTPTFPEISYNVYVYTDMSPGDSVIQLTAVDADEGSNGEISYEILVGSKGDFVINRTTGL VSIAPGVELVVGQTYALTVQASDNAPPAERRHSICTVYIEVLPPNNQSPPRFPQLMYSLEVSEA MRIGAVLLNLQATDREGDPITYAIENGDPQRVFNLSETTGILSLGKALDRESTDRYILIVTASD GRPDGTSTATVNIVVTDVNDNAPVFDPYLPRNLSVVEEEANAFVGQVRATDPDAGINGQVHYSL GNFNNLFRITSNGSIYTAVKLNREARDHYELVVVATDGAVHPRHSTLTLYIKVLDIDDNSPVFT NSTYTVVVEENLPAGTAFLQIEAKDVDLGANVSYRIRSPEVKHLFALHPFTGELSLLRSLDYEA FPDQEASITFLVEAFDIYGTMPPGIATVTVIVKDMNDYPPVFSKRIYKGMVAPDAVKGTPITTV YAEDADPPGLPASRVRYRVDDVQFPYPASIFDVEEDSGRVITRVNLNEEPTTIFKLVVVAFDDG EPVMSSSATVRILVLHPGEIPRFTQEEYRPPPVSELAARGTVVGVISAAAINQSIVYSIVAGNE DDKFGINNVTGVIYVNSPLDYETRTSYVLRVQADSLEVVLANLRVPSKSNTAKVYIEIQDENDH PPVFQKKFYIGGVSEDARMFTSVLRVKATDRDTGNYSAMAYRLIIPPIKEGKEGFVVETYTGLI KTAMLFHNMRRSYFKFQVIATDDYGKGLSGKADVLVSVVNQLDMQVIVSNVPPTLVEKKIEDLT EILDRYVQEQIPGAKVVVESIGARRHGDAFSLEDYSKCDLTVYAIDPQTNRAIDRNELFKFLDG KLLDINKDFQPYYGEGGRILEIRTPEAVTSIKKRGESLGYTEGALLALAFIIILCCIPAILVVL VSYRQFKVRQAECTKTARIQSAMPAAKPAAPVPAAPPPPPPPPPPGAHLYEELGESAMHKYEMP QYGSRRRLLPPAGQEEYGEVIGEAEEEYEEEEVSPEKVKKPKVEIREPSEEEVVVTVEKPPAAE PTYPTWKRARIFPMIFKKVRGLAEKRGIDLEGEEWRRRLEEEDKDYLQLTLDQEEATESTVESE EESSDYTEYTETESEFSESETTEESESETPSEEAEESSTPESEESESTESEGEKARKNIVLARR RPVVEEIQEVKGKKEEPPVEQEEEPPGEEEERPEEGEESEAAPMDESTDLEAQDVPEEGSAESA SVERGVESEEESESEVSSSSSSSSSESLSGGPWGFQVPEYDRRKEEDAKKSPGANSEGYNTAL hide sequence

Ensembl Acc Id:

ENSRNOP00000060829 ⟸ ENSRNOT00000067633

Ensembl Acc Id:

ENSRNOP00000081741 ⟸ ENSRNOT00000117858

Ensembl Acc Id:

ENSRNOP00000095831 ⟸ ENSRNOT00000100057

Ensembl Acc Id:

ENSRNOP00000076657 ⟸ ENSRNOT00000112877

Ensembl Acc Id:

ENSRNOP00000091654 ⟸ ENSRNOT00000103718

Ensembl Acc Id:

ENSRNOP00000084743 ⟸ ENSRNOT00000098841

Ensembl Acc Id:

ENSRNOP00000088506 ⟸ ENSRNOT00000117699

Ensembl Acc Id:

ENSRNOP00000085814 ⟸ ENSRNOT00000105317

Ensembl Acc Id:

ENSRNOP00000093215 ⟸ ENSRNOT00000109482

RefSeq Acc Id:	XP_063135619 ⟸ XM_063279549
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5Y0L1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063135621 ⟸ XM_063279551
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5Y0L1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063135620 ⟸ XM_063279550
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5Y0L1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063135622 ⟸ XM_063279552
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5Y0L1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063135623 ⟸ XM_063279553
- Peptide Label:	isoform X3
- UniProtKB:	F1LXN4 (UniProtKB/TrEMBL)

Protein Domains

Cadherin

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-F1LXN4-F1-model_v2	AlphaFold	F1LXN4	1-1551	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1590969	AgrOrtholog
BioCyc Gene	G2FUF-4091	BioCyc
Ensembl Genes	ENSRNOG00000000606	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000067633	ENTREZGENE
	ENSRNOT00000067633.5	UniProtKB/TrEMBL
	ENSRNOT00000098841	ENTREZGENE
	ENSRNOT00000098841.1	UniProtKB/TrEMBL
	ENSRNOT00000100057.1	UniProtKB/TrEMBL
	ENSRNOT00000103718.1	UniProtKB/TrEMBL
	ENSRNOT00000105317.1	UniProtKB/TrEMBL
	ENSRNOT00000109482.1	UniProtKB/TrEMBL
	ENSRNOT00000112877	ENTREZGENE
	ENSRNOT00000112877.1	UniProtKB/TrEMBL
	ENSRNOT00000117699.1	UniProtKB/TrEMBL
	ENSRNOT00000117858.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.3430	UniProtKB/TrEMBL
	Cadherins	UniProtKB/TrEMBL
InterPro	Cadherin	UniProtKB/TrEMBL
	Cadherin-domain_protein	UniProtKB/TrEMBL
	Cadherin-like	UniProtKB/TrEMBL
	Cadherin_CS	UniProtKB/TrEMBL
	EC_dom	UniProtKB/TrEMBL
	PCDH15_12th_dom	UniProtKB/TrEMBL
	Protocadherin-15	UniProtKB/TrEMBL
NCBI Gene	690865	ENTREZGENE
PANTHER	DESMOGLEIN FAMILY MEMBER	UniProtKB/TrEMBL
	NEURAL-CADHERIN	UniProtKB/TrEMBL
Pfam	Cadherin	UniProtKB/TrEMBL
	ECD	UniProtKB/TrEMBL
	PCDH15_12th	UniProtKB/TrEMBL
PhenoGen	Pcdh15	PhenoGen
PRINTS	CADHERIN	UniProtKB/TrEMBL
PROSITE	CADHERIN_1	UniProtKB/TrEMBL
	CADHERIN_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000000606	RatGTEx
SMART	SM00112	UniProtKB/TrEMBL
Superfamily-SCOP	Cadherin	UniProtKB/TrEMBL
UniProt	A0A8I5Y0L1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I5ZTI9_RAT	UniProtKB/TrEMBL
	A0A8I5ZYQ7_RAT	UniProtKB/TrEMBL
	A0A8I6A7Z6_RAT	UniProtKB/TrEMBL
	A0A8I6AT55_RAT	UniProtKB/TrEMBL
	A0A8I6B3E0_RAT	UniProtKB/TrEMBL
	A0A8I6GEC2_RAT	UniProtKB/TrEMBL
	A0A8I6GK65_RAT	UniProtKB/TrEMBL
	F1LXN4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Pcdh15	protocadherin related 15	NEWGENE_1590969	protocadherin-related 15	Data merged from RGD:9206894	737654	PROVISIONAL
2017-07-18	Pcdh15	protocadherin related 15	Pcdh15	protocadherin 15	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2014-08-25	NEWGENE_1590969	protocadherin-related 15			Symbol and Name status set to provisional	70820	PROVISIONAL
2013-05-24	Pcdh15	protocadherin 15	LOC687745	similar to protocadherin 15	Data merged from RGD:1597540	1643240	APPROVED
2008-03-06	Pcdh15	protocadherin 15	LOC690865	similar to protocadherin 15	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC690865	similar to protocadherin 15			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-20	LOC687745	similar to protocadherin 15			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

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