Pcdh15 (protocadherin related 15) - Rat Genome Database

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Gene: Pcdh15 (protocadherin related 15) Rattus norvegicus
Analyze
Symbol: Pcdh15
Name: protocadherin related 15
RGD ID: 1590969
Description: Predicted to enable calcium ion binding activity. Involved in response to calcium ion. Predicted to be located in several cellular components, including extracellular space; photoreceptor outer segment; and stereocilium bundle. 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 atrazine; bisphenol A; glyphosate.
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
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   KCI/Kyo  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22013,997,094 - 15,496,446 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2013,963,565 - 15,494,719 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2014,715,022 - 15,411,013 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02014,069,984 - 14,766,014 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02014,542,552 - 15,238,564 (-)NCBIRnor_WKY
Rnor_6.02014,952,213 - 15,334,745 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2014,952,213 - 15,334,745 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02018,712,995 - 19,021,206 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02017,138,580 - 17,521,597 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42014,507,804 - 15,240,479 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2015,459,406 - 16,139,466 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Molecular Pathway Annotations     Click to see Annotation Detail View
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 AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22013,997,094 - 15,496,446 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2013,963,565 - 15,494,719 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2014,715,022 - 15,411,013 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.02014,069,984 - 14,766,014 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.02014,542,552 - 15,238,564 (-)NCBIRnor_WKY
Rnor_6.02014,952,213 - 15,334,745 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2014,952,213 - 15,334,745 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02018,712,995 - 19,021,206 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.02017,138,580 - 17,521,597 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42014,507,804 - 15,240,479 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2015,459,406 - 16,139,466 (-)NCBICelera
Cytogenetic Map20p12NCBI
PCDH15
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381053,802,771 - 55,627,942 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1053,802,771 - 55,627,942 (-)EnsemblGRCh38hg38GRCh38
GRCh371055,562,531 - 57,387,702 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361055,250,866 - 56,231,057 (-)NCBINCBI36Build 36hg18NCBI36
Build 341055,250,865 - 56,231,057NCBI
Celera1048,825,500 - 49,824,287 (-)NCBICelera
Cytogenetic Map10q21.1NCBI
HuRef1049,544,130 - 50,545,244 (-)NCBIHuRef
CHM1_11055,844,015 - 56,842,749 (-)NCBICHM1_1
T2T-CHM13v2.01054,651,649 - 56,478,314 (-)NCBIT2T-CHM13v2.0
Pcdh15
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391072,932,003 - 74,485,663 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1072,935,174 - 74,485,569 (+)EnsemblGRCm39 Ensembl
GRCm381073,096,277 - 74,649,831 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1073,099,342 - 74,649,737 (+)EnsemblGRCm38mm10GRCm38
MGSCv371073,284,615 - 74,112,482 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361073,667,153 - 74,076,383 (+)NCBIMGSCv36mm8
Celera1074,887,647 - 75,712,367 (+)NCBICelera
Cytogenetic Map10B5.3NCBI
cM Map1037.43NCBI
Pcdh15
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554258,428,680 - 8,899,028 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554258,443,523 - 9,203,177 (-)NCBIChiLan1.0ChiLan1.0
PCDH15
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11052,661,035 - 54,456,043 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1052,666,969 - 53,536,611 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01050,452,290 - 52,236,538 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PCDH15
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12633,426,728 - 34,589,208 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2633,719,839 - 34,588,017 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2633,735,217 - 34,473,542 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02635,380,608 - 36,116,590 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2635,248,142 - 36,113,521 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12633,285,817 - 34,023,503 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02632,872,620 - 33,606,715 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02634,074,758 - 34,812,730 (+)NCBIUU_Cfam_GSD_1.0
Pcdh15
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721373,974,985 - 74,439,013 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936910141,917 - 602,089 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936910233,800 - 602,145 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCDH15
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11495,530,168 - 96,388,032 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214103,931,584 - 104,873,398 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCDH15
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1975,642,985 - 77,415,370 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl976,726,627 - 77,398,716 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604836,564,791 - 38,363,879 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcdh15
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247919,195,902 - 9,990,131 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247919,042,311 - 9,992,341 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcdh15
15272 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804241017617956Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat

Markers in Region
D20Rat60  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22014,100,894 - 14,101,050 (+)MAPPERmRatBN7.2
Rnor_6.02015,050,410 - 15,050,565NCBIRnor6.0
Rnor_5.02017,237,299 - 17,237,454UniSTSRnor5.0
RGSC_v3.42014,605,696 - 14,605,852RGDRGSC3.4
RGSC_v3.42014,605,697 - 14,605,852UniSTSRGSC3.4
RGSC_v3.12014,612,602 - 14,612,758RGD
Celera2015,551,025 - 15,551,180UniSTS
FHH x ACI Map206.8999RGD
FHH x ACI Map206.8999UniSTS
Cytogenetic Map20p12UniSTS
D20Got15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22014,114,102 - 14,114,361 (+)MAPPERmRatBN7.2
Rnor_6.02015,063,616 - 15,063,874NCBIRnor6.0
Rnor_5.02017,250,507 - 17,250,765UniSTSRnor5.0
RGSC_v3.42014,618,968 - 14,619,227RGDRGSC3.4
RGSC_v3.42014,618,969 - 14,619,227UniSTSRGSC3.4
RGSC_v3.12014,625,874 - 14,626,133RGD
Celera2015,560,527 - 15,560,785UniSTS
RH 2.0 Map20206.1RGD
Cytogenetic Map20p12UniSTS
D20Got14  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22014,041,517 - 14,041,743 (+)MAPPERmRatBN7.2
Rnor_6.02014,991,035 - 14,991,260NCBIRnor6.0
Rnor_5.02017,177,790 - 17,178,015UniSTSRnor5.0
RGSC_v3.42014,546,135 - 14,546,361RGDRGSC3.4
RGSC_v3.42014,546,136 - 14,546,361UniSTSRGSC3.4
RGSC_v3.12014,553,041 - 14,553,267RGD
RH 2.0 Map20210.6RGD
Cytogenetic Map20p12UniSTS
RH142552  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22014,610,466 - 14,610,747 (-)MAPPERmRatBN7.2
Rnor_6.02016,616,952 - 16,617,232NCBIRnor6.0
Rnor_5.02018,798,325 - 18,798,605UniSTSRnor5.0
RGSC_v3.42015,120,682 - 15,120,962UniSTSRGSC3.4
Celera2016,050,308 - 16,050,588UniSTS
RH 3.4 Map20180.53UniSTS
Cytogenetic Map20p12UniSTS
RH144278  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22014,265,653 - 14,265,837 (+)MAPPERmRatBN7.2
Rnor_6.02015,214,790 - 15,214,973NCBIRnor6.0
Rnor_5.02017,401,681 - 17,401,864UniSTSRnor5.0
RGSC_v3.42014,770,572 - 14,770,755UniSTSRGSC3.4
Celera2015,710,436 - 15,710,619UniSTS
RH 3.4 Map20181.74UniSTS
Cytogenetic Map20p12UniSTS
AU048858  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22014,100,889 - 14,100,983 (+)MAPPERmRatBN7.2
Rnor_6.02015,050,405 - 15,050,498NCBIRnor6.0
Rnor_5.02017,237,294 - 17,237,387UniSTSRnor5.0
RGSC_v3.42014,605,692 - 14,605,785UniSTSRGSC3.4
Celera2015,551,020 - 15,551,113UniSTS
Cytogenetic Map20p12UniSTS


Related Rat Strains
The following Strains have been annotated to Pcdh15


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2
Low 2 8 17 70 4 30
Below cutoff 3 11 13 5 2 5 8 9 2 18 11 7 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067633   ⟹   ENSRNOP00000060829
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,002,696 - 14,825,461 (-)Ensembl
Rnor_6.0 Ensembl2014,952,213 - 15,334,745 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098841   ⟹   ENSRNOP00000084743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 14,700,033 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100057   ⟹   ENSRNOP00000095831
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 15,494,719 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103718   ⟹   ENSRNOP00000091654
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 14,700,033 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105317   ⟹   ENSRNOP00000085814
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 15,494,719 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109482   ⟹   ENSRNOP00000093215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 15,494,719 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112877   ⟹   ENSRNOP00000076657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2013,963,565 - 14,825,461 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117699   ⟹   ENSRNOP00000088506
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 15,494,719 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117858   ⟹   ENSRNOP00000081741
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2014,014,829 - 15,494,719 (-)Ensembl
RefSeq Acc Id: NM_001271377   ⟹   NP_001258306
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,002,696 - 14,700,033 (-)NCBI
Rnor_6.02014,952,213 - 15,334,745 (-)NCBI
Rnor_5.02017,138,580 - 17,521,597 (-)NCBI
Rnor_5.02018,712,995 - 19,021,206 (+)NCBI
Celera2015,459,406 - 16,139,466 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099104   ⟹   XP_038955032
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 15,496,446 (-)NCBI
RefSeq Acc Id: XM_039099105   ⟹   XP_038955033
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 14,826,194 (-)NCBI
RefSeq Acc Id: XM_039099106   ⟹   XP_038955034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 14,954,702 (-)NCBI
RefSeq Acc Id: XM_039099107   ⟹   XP_038955035
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 14,826,194 (-)NCBI
RefSeq Acc Id: XM_039099108   ⟹   XP_038955036
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 15,496,445 (-)NCBI
RefSeq Acc Id: XM_039099109   ⟹   XP_038955037
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 15,496,445 (-)NCBI
RefSeq Acc Id: XM_039099110   ⟹   XP_038955038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,013,299 - 15,496,445 (-)NCBI
RefSeq Acc Id: XM_039099111   ⟹   XP_038955039
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22013,997,094 - 15,496,436 (-)NCBI
RefSeq Acc Id: XM_039099112   ⟹   XP_038955040
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22013,997,094 - 15,496,434 (-)NCBI
RefSeq Acc Id: XM_039099114   ⟹   XP_038955042
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22014,001,386 - 15,496,446 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001258306   ⟸   NM_001271377
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000060829   ⟸   ENSRNOT00000067633
RefSeq Acc Id: XP_038955039   ⟸   XM_039099111
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038955040   ⟸   XM_039099112
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038955042   ⟸   XM_039099114
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038955032   ⟸   XM_039099104
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AT55 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955038   ⟸   XM_039099110
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038955037   ⟸   XM_039099109
- Peptide Label: isoform X3
- UniProtKB: A0A8I6GK65 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955036   ⟸   XM_039099108
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038955034   ⟸   XM_039099106
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AT55 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955035   ⟸   XM_039099107
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AT55 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038955033   ⟸   XM_039099105
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AT55 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000081741   ⟸   ENSRNOT00000117858
RefSeq Acc Id: ENSRNOP00000095831   ⟸   ENSRNOT00000100057
RefSeq Acc Id: ENSRNOP00000076657   ⟸   ENSRNOT00000112877
RefSeq Acc Id: ENSRNOP00000091654   ⟸   ENSRNOT00000103718
RefSeq Acc Id: ENSRNOP00000084743   ⟸   ENSRNOT00000098841
RefSeq Acc Id: ENSRNOP00000088506   ⟸   ENSRNOT00000117699
RefSeq Acc Id: ENSRNOP00000085814   ⟸   ENSRNOT00000105317
RefSeq Acc Id: ENSRNOP00000093215   ⟸   ENSRNOT00000109482
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

Database Acc Id Source(s)
AGR Gene RGD:1590969 AgrOrtholog
BioCyc Gene G2FUF-4091 BioCyc
Ensembl Genes ENSRNOG00000000606 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000060829 ENTREZGENE
  ENSRNOP00000060829.4 UniProtKB/TrEMBL
  ENSRNOP00000076657 ENTREZGENE
  ENSRNOP00000076657.1 UniProtKB/TrEMBL
  ENSRNOP00000081741.1 UniProtKB/TrEMBL
  ENSRNOP00000084743.1 UniProtKB/TrEMBL
  ENSRNOP00000085814 ENTREZGENE
  ENSRNOP00000085814.1 UniProtKB/TrEMBL
  ENSRNOP00000088506.1 UniProtKB/TrEMBL
  ENSRNOP00000091654 ENTREZGENE
  ENSRNOP00000091654.1 UniProtKB/TrEMBL
  ENSRNOP00000093215 ENTREZGENE
  ENSRNOP00000093215.1 UniProtKB/TrEMBL
  ENSRNOP00000095831.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067633 ENTREZGENE
  ENSRNOT00000067633.5 UniProtKB/TrEMBL
  ENSRNOT00000098841.1 UniProtKB/TrEMBL
  ENSRNOT00000100057.1 UniProtKB/TrEMBL
  ENSRNOT00000103718 ENTREZGENE
  ENSRNOT00000103718.1 UniProtKB/TrEMBL
  ENSRNOT00000105317 ENTREZGENE
  ENSRNOT00000105317.1 UniProtKB/TrEMBL
  ENSRNOT00000109482 ENTREZGENE
  ENSRNOT00000109482.1 UniProtKB/TrEMBL
  ENSRNOT00000112877 ENTREZGENE
  ENSRNOT00000112877.1 UniProtKB/TrEMBL
  ENSRNOT00000117699.1 UniProtKB/TrEMBL
  ENSRNOT00000117858.1 UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  EC_dom UniProtKB/TrEMBL
  Protocadherin-15 UniProtKB/TrEMBL
NCBI Gene 690865 ENTREZGENE
PANTHER PTHR24028:SF11 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  ECD UniProtKB/TrEMBL
PhenoGen Pcdh15 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt A0A8I5Y0L1_RAT UniProtKB/TrEMBL
  A0A8I5ZTI9_RAT UniProtKB/TrEMBL
  A0A8I5ZYQ7_RAT UniProtKB/TrEMBL
  A0A8I6A7Z6_RAT UniProtKB/TrEMBL
  A0A8I6AT55 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B3E0_RAT UniProtKB/TrEMBL
  A0A8I6GEC2_RAT UniProtKB/TrEMBL
  A0A8I6GK65 ENTREZGENE, UniProtKB/TrEMBL
  F1LXN4_RAT 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 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 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