Pcdha11 (protocadherin alpha 11) - Rat Genome Database
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Gene: Pcdha11 (protocadherin alpha 11) Mus musculus
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Symbol: Pcdha11
Name: protocadherin alpha 11
RGD ID: 1614469
MGI Page MGI
Description: Predicted to be involved in cell adhesion. Localizes to membrane. Is expressed in brain. Orthologous to human PCDHA11 (protocadherin alpha 11); INTERACTS WITH 1,1-dichloroethene; 5-azacytidine; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: A830022B16Rik; cadherin-related neuronal receptor 7; Cn; Cnr7; Cr; Crnr7; protocadherin alpha-11
RGD Orthologs
Human
Rat
Bonobo
Dog
Pig
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391837,143,911 - 37,320,710 (+)NCBIGRCm39mm39
GRCm39 Ensembl1837,143,765 - 37,320,710 (+)Ensembl
GRCm381837,010,858 - 37,187,657 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1837,010,712 - 37,187,657 (+)EnsemblGRCm38mm10GRCm38
MGSCv371837,170,512 - 37,347,311 (+)NCBIGRCm37mm9NCBIm37
MGSCv361837,136,832 - 37,313,631 (+)NCBImm8
Celera1837,457,628 - 37,460,021 (+)NCBICelera
Cytogenetic Map18B3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9655502   PMID:10349636   PMID:10380929   PMID:10612399   PMID:10662547   PMID:10716726   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11230163   PMID:12154121   PMID:12466851  
PMID:12467588   PMID:12477932   PMID:15347688   PMID:15570159   PMID:15640798   PMID:16141072   PMID:16141073   PMID:16602821   PMID:21267068   PMID:21873635   PMID:24698270   PMID:29911975  
PMID:30377227   PMID:32633719  


Genomics

Comparative Map Data
Pcdha11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391837,143,911 - 37,320,710 (+)NCBIGRCm39mm39
GRCm39 Ensembl1837,143,765 - 37,320,710 (+)Ensembl
GRCm381837,010,858 - 37,187,657 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1837,010,712 - 37,187,657 (+)EnsemblGRCm38mm10GRCm38
MGSCv371837,170,512 - 37,347,311 (+)NCBIGRCm37mm9NCBIm37
MGSCv361837,136,832 - 37,313,631 (+)NCBImm8
Celera1837,457,628 - 37,460,021 (+)NCBICelera
Cytogenetic Map18B3NCBI
PCDHA11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5140,868,183 - 141,012,347 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl5140,868,183 - 141,012,344 (+)EnsemblGRCh38hg38GRCh38
GRCh385140,867,513 - 141,012,347 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375140,247,098 - 140,391,932 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365140,228,015 - 140,372,113 (+)NCBINCBI36hg18NCBI36
Build 345140,228,014 - 140,231,305NCBI
Celera5136,324,642 - 136,468,708 (+)NCBI
Cytogenetic Map5q31.3NCBI
HuRef5135,392,570 - 135,536,628 (+)NCBIHuRef
CHM1_15139,680,290 - 139,825,092 (+)NCBICHM1_1
Pcdha11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0 Ensembl1829,987,206 - 30,215,897 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01830,017,918 - 30,215,896 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01829,715,168 - 29,924,443 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41829,728,603 - 29,928,030 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1828,356,751 - 28,552,754 (+)NCBICelera
Cytogenetic Map18p11NCBI
PCDHA11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1 Ensembl5142,348,847 - 142,366,618 (+)Ensemblpanpan1.1panPan2
PCDHA11
(Canis lupus familiaris - dog)
No map positions available.
PCDHA11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2142,538,379 - 142,541,234 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12142,521,690 - 142,687,684 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22148,530,876 - 148,639,936 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Position Markers
Pcdha11  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18B3UniSTS
cM Map18 UniSTS
PMC311048P2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381837,020,700 - 37,020,817UniSTSGRCm38
MGSCv371837,180,354 - 37,180,471UniSTSGRCm37
Celera1837,467,458 - 37,467,575UniSTS
Cytogenetic Map18CUniSTS
Cytogenetic Map18B3UniSTS
Cytogenetic Map18B2-B3UniSTS
PMC312645P1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381837,185,153 - 37,185,340UniSTSGRCm38
MGSCv371837,344,807 - 37,344,994UniSTSGRCm37
Cytogenetic Map18CUniSTS
Cytogenetic Map18B3UniSTS
Cytogenetic Map18B2-B3UniSTS
WI-19540  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381837,187,340 - 37,187,603UniSTSGRCm38
MGSCv371837,346,994 - 37,347,257UniSTSGRCm37
Cytogenetic Map18CUniSTS
Cytogenetic Map18B3UniSTS
Cytogenetic Map18B2-B3UniSTS
RH65516  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381837,186,643 - 37,186,817UniSTSGRCm38
MGSCv371837,346,297 - 37,346,471UniSTSGRCm37
Cytogenetic Map18B2-B3UniSTS
Cytogenetic Map18CUniSTS
Cytogenetic Map18B3UniSTS
PMC311048P1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381837,159,265 - 37,159,353UniSTSGRCm38
MGSCv371837,318,919 - 37,319,007UniSTSGRCm37
Cytogenetic Map18CUniSTS
Cytogenetic Map18B3UniSTS
Cytogenetic Map18B2-B3UniSTS
Pcdha  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18B2-B3UniSTS
Cytogenetic Map18CUniSTS
Cytogenetic Map18B3UniSTS
cM Map18 UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226723Tibw9_mtibia width 9, proximal, 16 week (mouse)18320000060800000Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961139571Mouse
1558873Hrtfm7_mheart failure modifier 7 (mouse)Not determined18795390741954049Mouse
13504732Cath6_mcarotid atherosclerosis 6 (mouse)181350407347504073Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181389696666965891Mouse
1300994Pvcan3_mprotection against vaginal candidiasis 3 (mouse)Not determined181606658750066723Mouse
1301307Phospq1_mphospholipid QTL 1 (mouse)Not determined181800665152006806Mouse
1558743Kcal1_mkilocalorie 1 (mouse)Not determined181888582152885939Mouse
1300638Im7_mimmunoregulatory 7 (mouse)Not determined181888582152885939Mouse
11532709Sluc41_msusceptibility to lung cancer 41 (mouse)182082063757457636Mouse
13463476Hctq8_mhematocrit QTL 8 (mouse)182108452755084674Mouse
1301570Sluc14_msusceptibility to lung cancer 14 (mouse)Not determined182248686156487074Mouse
1300877Adip8_madiposity 8 (mouse)Not determined182248686156487074Mouse
11532710Sluc41a_msusceptibility to lung cancer 41a (mouse)182248686156487074Mouse
11532715Sluc41b_msusceptibility to lung cancer 41b (mouse)182248686156487074Mouse
11532716Sluc41c_msusceptibility to lung cancer 41c (mouse)182248686156487074Mouse
4142031Moen1_mmodifier of engrailed QTL 1 (mouse)Not determined182398250757982677Mouse
25823173Hrsq12_mhost response to SARS QTL 12, hemorrhage (mouse)182476282478296340Mouse
12904950Smmq3_msoleus muscle mass QTL 3 (mouse)182592381059923810Mouse
25823167Hrsq5_mhost response to SARS QTL 5, D3% weight (mouse)182710806258694005Mouse
25823171Hrsq10_mhost response to SARS QTL 10, D4% weight (mouse)182710806258694005Mouse
25823174Hrsq11_mhost response to SARS QTL 11, log titer (mouse)182710806258694005Mouse
1301400Lmr13_mleishmaniasis resistance 13 (mouse)Not determined182797631361976451Mouse
4141857Mhysq5_mmale hybrid sterility QTL 5 (mouse)Not determined2799753761997672Mouse
1302163Bmd16_mbone mineral density 16 (mouse)Not determined182953484763534993Mouse
12880412V125Dq12_mvitamin D active form serum level QTL 12 (mouse)183010000064100000Mouse
1300685Scc5_mcolon tumor susceptibility 5 (mouse)Not determined183185541365855562Mouse
1357690Vtbt19_mvertebral trabecular bone trait 19 (mouse)Not determined183295797666958154Mouse
1301771Pcyts6_mplasmacytoma susceptibility 6 (mouse)Not determined183552556069525779Mouse
11041903Lmr27_mleishmaniasis resistance 27 (mouse)183605451444976451Mouse
4142366Chlq10_mcirculating hormone level QTL 10 (mouse)Not determined183615795070158108Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000115657   ⟹   ENSMUSP00000111321
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1837,010,752 - 37,187,657 (+)Ensembl
RefSeq Acc Id: ENSMUST00000192447   ⟹   ENSMUSP00000142270
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1837,010,832 - 37,187,388 (+)Ensembl
RefSeq Acc Id: ENSMUST00000193856   ⟹   ENSMUSP00000141821
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1837,012,252 - 37,185,217 (+)Ensembl
RefSeq Acc Id: ENSMUST00000194050
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1837,010,712 - 37,014,034 (+)Ensembl
RefSeq Acc Id: ENSMUST00000194691
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1837,010,714 - 37,160,705 (+)Ensembl
RefSeq Acc Id: NM_009960   ⟹   NP_034090
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391837,143,911 - 37,320,710 (+)NCBI
GRCm381837,010,858 - 37,187,657 (+)ENTREZGENE
MGSCv371837,170,512 - 37,347,311 (+)RGD
Celera1837,457,628 - 37,460,021 (+)RGD
cM Map18 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_034090   ⟸   NM_009960
- Peptide Label: precursor
- UniProtKB: Q91Y19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000141821   ⟸   ENSMUST00000193856
RefSeq Acc Id: ENSMUSP00000111321   ⟸   ENSMUST00000115657
RefSeq Acc Id: ENSMUSP00000142270   ⟸   ENSMUST00000192447
Protein Domains
Cadherin

Promoters
RGD ID:13677516
Promoter ID:EPDNEW_M22907
Type:multiple initiation site
Name:Pcdha11_1
Description:Mus musculus protocadherin alpha 11 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381837,010,712 - 37,010,772EPDNEW
RGD ID:6829436
Promoter ID:MM_KWN:25008
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:NM_009960,   UC008EPG.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361837,172,056 - 37,172,556 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1298372 AgrOrtholog
Ensembl Genes ENSMUSG00000102206 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000111321 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000141821 UniProtKB/TrEMBL
  ENSMUSP00000142270 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000115657 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000192447 UniProtKB/TrEMBL
  ENSMUST00000193856 UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CBD UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_N UniProtKB/TrEMBL
KEGG Report mmu:12942 UniProtKB/TrEMBL
MGD MGI:1298372 ENTREZGENE
NCBI Gene 12942 ENTREZGENE
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_2 UniProtKB/TrEMBL
  Cadherin_tail UniProtKB/TrEMBL
PhenoGen Pcdha11 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt A0A0A6YX38_MOUSE UniProtKB/TrEMBL
  A0A0A6YY44_MOUSE UniProtKB/TrEMBL
  B9EJ65_MOUSE UniProtKB/TrEMBL
  Q91Y19 ENTREZGENE, UniProtKB/TrEMBL