Pcdh1 (protocadherin 1) - Rat Genome Database

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Gene: Pcdh1 (protocadherin 1) Mus musculus
Analyze
Symbol: Pcdh1
Name: protocadherin 1
RGD ID: 1623120
MGI Page MGI
Description: Predicted to be involved in cell adhesion. Predicted to act upstream of or within calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules and homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to be located in cell junction; nucleolus; and nucleoplasm. Is expressed in several structures, including central nervous system; genitourinary system; gut; heart; and sensory organ. Orthologous to human PCDH1 (protocadherin 1).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2010005A06Rik; AI585920; protocadherin-1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391838,318,967 - 38,345,023 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1838,318,967 - 38,345,106 (-)EnsemblGRCm39 Ensembl
GRCm381838,185,914 - 38,212,048 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1838,185,914 - 38,212,053 (-)EnsemblGRCm38mm10GRCm38
MGSCv371838,356,348 - 38,369,416 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361838,322,668 - 38,335,736 (-)NCBIMGSCv36mm8
Celera1839,540,949 - 39,554,018 (-)NCBICelera
Cytogenetic Map18B3NCBI
cM Map1820.08NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8575755   PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:15905963   PMID:16141072   PMID:16141073   PMID:18729229  
PMID:18799693   PMID:21362171   PMID:21873635   PMID:24952961   PMID:24992194   PMID:25977363   PMID:26496610   PMID:28558017   PMID:28706196   PMID:37965156  


Genomics

Comparative Map Data
Pcdh1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391838,318,967 - 38,345,023 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1838,318,967 - 38,345,106 (-)EnsemblGRCm39 Ensembl
GRCm381838,185,914 - 38,212,048 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1838,185,914 - 38,212,053 (-)EnsemblGRCm38mm10GRCm38
MGSCv371838,356,348 - 38,369,416 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361838,322,668 - 38,335,736 (-)NCBIMGSCv36mm8
Celera1839,540,949 - 39,554,018 (-)NCBICelera
Cytogenetic Map18B3NCBI
cM Map1820.08NCBI
PCDH1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385141,853,090 - 141,878,410 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5141,853,090 - 141,879,246 (-)EnsemblGRCh38hg38GRCh38
GRCh375141,232,655 - 141,257,975 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365141,212,856 - 141,238,128 (-)NCBINCBI36Build 36hg18NCBI36
Build 345141,212,858 - 141,238,128NCBI
Celera5137,309,824 - 137,335,077 (-)NCBICelera
Cytogenetic Map5q31.3NCBI
HuRef5136,376,728 - 136,401,983 (-)NCBIHuRef
CHM1_15140,666,027 - 140,691,306 (-)NCBICHM1_1
T2T-CHM13v2.05142,379,045 - 142,404,656 (-)NCBIT2T-CHM13v2.0
Pcdh1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81830,258,154 - 30,290,828 (-)NCBIGRCr8
mRatBN7.21830,011,692 - 30,039,679 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1830,013,185 - 30,039,318 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01831,330,081 - 31,343,147 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1831,328,919 - 31,343,797 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01831,011,244 - 31,023,532 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41831,110,955 - 31,124,786 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11831,137,850 - 31,157,777 (-)NCBI
Celera1829,658,359 - 29,671,795 (-)NCBICelera
Cytogenetic Map18p11NCBI
Pcdh1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541511,916,092 - 11,934,658 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541511,916,095 - 11,934,658 (+)NCBIChiLan1.0ChiLan1.0
PCDH1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24137,097,517 - 137,125,958 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15135,237,073 - 135,265,510 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05137,209,537 - 137,237,977 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15143,323,710 - 143,349,575 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5143,324,641 - 143,345,042 (-)Ensemblpanpan1.1panPan2
PCDH1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1236,813,663 - 36,836,941 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl236,813,657 - 36,836,497 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha233,863,495 - 33,889,885 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0237,265,925 - 37,292,153 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl237,265,589 - 37,291,537 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1234,340,392 - 34,366,791 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0235,151,686 - 35,177,896 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0235,959,180 - 35,985,407 (-)NCBIUU_Cfam_GSD_1.0
Pcdh1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213150,723,092 - 150,746,625 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650412,296,324 - 12,320,611 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650412,293,889 - 12,320,598 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCDH1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2143,475,935 - 143,501,487 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12143,475,931 - 143,501,204 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22149,679,040 - 149,699,032 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PCDH1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12344,483,355 - 44,510,131 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2344,481,056 - 44,500,780 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603433,341,659 - 33,368,634 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcdh1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247741,071,155 - 1,097,854 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247741,071,155 - 1,097,960 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcdh1
1060 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2535
Count of miRNA genes:734
Interacting mature miRNAs:958
Transcripts:ENSMUST00000057185, ENSMUST00000159405, ENSMUST00000160721, ENSMUST00000161701
Prediction methods: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 (GRCm39)
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)18320000060933072Mouse
1558849W3q15_mweight 3 weeks QTL 15 (mouse)Not determined18504111961272643Mouse
1558873Hrtfm7_mheart failure modifier 7 (mouse)Not determined18808696442087106Mouse
13504732Cath6_mcarotid atherosclerosis 6 (mouse)181363712647637126Mouse
1357603Mom3_mmodifier of Min 3 (mouse)Not determined181403002367098962Mouse
1300994Pvcan3_mprotection against vaginal candidiasis 3 (mouse)Not determined181619964050199776Mouse
1301307Phospq1_mphospholipid QTL 1 (mouse)Not determined181813970452139859Mouse
1300638Im7_mimmunoregulatory 7 (mouse)Not determined181901887453018992Mouse
1558743Kcal1_mkilocalorie 1 (mouse)Not determined181901887453018992Mouse
11532709Sluc41_msusceptibility to lung cancer 41 (mouse)182095369457590708Mouse
13463476Hctq8_mhematocrit QTL 8 (mouse)182121758055217727Mouse
1300877Adip8_madiposity 8 (mouse)Not determined182261991456620127Mouse
11532710Sluc41a_msusceptibility to lung cancer 41a (mouse)182261991456620127Mouse
11532715Sluc41b_msusceptibility to lung cancer 41b (mouse)182261991456620127Mouse
11532716Sluc41c_msusceptibility to lung cancer 41c (mouse)182261991456620127Mouse
1301570Sluc14_msusceptibility to lung cancer 14 (mouse)Not determined182261991456620127Mouse
4142031Moen1_mmodifier of engrailed QTL 1 (mouse)Not determined182411556058115730Mouse
25823173Hrsq12_mhost response to SARS QTL 12, hemorrhage (mouse)182489588178339555Mouse
12904950Smmq3_msoleus muscle mass QTL 3 (mouse)182605687560056875Mouse
25823167Hrsq5_mhost response to SARS QTL 5, D3% weight (mouse)182724111558827077Mouse
25823171Hrsq10_mhost response to SARS QTL 10, D4% weight (mouse)182724111558827077Mouse
25823174Hrsq11_mhost response to SARS QTL 11, log titer (mouse)182724111558827077Mouse
1301400Lmr13_mleishmaniasis resistance 13 (mouse)Not determined182810938062109518Mouse
4141857Mhysq5_mmale hybrid sterility QTL 5 (mouse)Not determined2813060462130739Mouse
1302163Bmd16_mbone mineral density 16 (mouse)Not determined182966791463668060Mouse
12880412V125Dq12_mvitamin D active form serum level QTL 12 (mouse)183023306764233067Mouse
1300685Scc5_mcolon tumor susceptibility 5 (mouse)Not determined183198848065988629Mouse
1357690Vtbt19_mvertebral trabecular bone trait 19 (mouse)Not determined183309104367091221Mouse
1301771Pcyts6_mplasmacytoma susceptibility 6 (mouse)Not determined183565863269658851Mouse
11041903Lmr27_mleishmaniasis resistance 27 (mouse)183618756745109518Mouse
4142366Chlq10_mcirculating hormone level QTL 10 (mouse)Not determined183629102270291180Mouse
15039381Ltgq8_mliver triglyceride QTL 8 (mouse)183820656972206569Mouse
15039383Mvlq5_mmicrovesicular liver lesion QTL 5 (mouse)183820656972206569Mouse
15039384Liviq1_mliver inflammation QTL 1 (mouse)183820656972206569Mouse
15039386Mvlq4_mmacrovesicular liver lesion QTL 4 (mouse)183820656972206569Mouse

Markers in Region
AI585920  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381838,196,978 - 38,197,089UniSTSGRCm38
MGSCv371838,356,632 - 38,356,743UniSTSGRCm37
Celera1839,541,233 - 39,541,344UniSTS
Cytogenetic Map18B3UniSTS
cM Map1818.0UniSTS
Whitehead/MRC_RH18568.06UniSTS
Pcdh1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18B3UniSTS
cM Map1818.0UniSTS
Pcdh1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map18B3UniSTS
cM Map1818.0UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001403795 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_029357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006526320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006526322 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006526323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006526324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017318005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC133646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK008111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY861416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY861417 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY861418 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY861431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC024121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC039218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC040402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466528 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000057185   ⟹   ENSMUSP00000055199
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1838,329,747 - 38,342,815 (-)Ensembl
GRCm38.p6 Ensembl1838,196,694 - 38,209,762 (-)Ensembl
RefSeq Acc Id: ENSMUST00000159405   ⟹   ENSMUSP00000125309
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1838,329,747 - 38,345,023 (-)Ensembl
GRCm38.p6 Ensembl1838,196,694 - 38,211,970 (-)Ensembl
RefSeq Acc Id: ENSMUST00000160721   ⟹   ENSMUSP00000124732
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1838,318,967 - 38,345,106 (-)Ensembl
GRCm38.p6 Ensembl1838,185,914 - 38,212,053 (-)Ensembl
RefSeq Acc Id: ENSMUST00000161701   ⟹   ENSMUSP00000125576
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1838,321,943 - 38,336,216 (-)Ensembl
GRCm38.p6 Ensembl1838,188,890 - 38,203,163 (-)Ensembl
RefSeq Acc Id: ENSMUST00000193828   ⟹   ENSMUSP00000142328
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1838,336,497 - 38,343,607 (-)Ensembl
GRCm38.p6 Ensembl1838,203,444 - 38,210,554 (-)Ensembl
RefSeq Acc Id: ENSMUST00000194312   ⟹   ENSMUSP00000141877
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1838,336,497 - 38,336,893 (-)Ensembl
GRCm38.p6 Ensembl1838,203,444 - 38,203,840 (-)Ensembl
RefSeq Acc Id: NM_001403795   ⟹   NP_001390724
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,318,967 - 38,345,023 (-)NCBI
RefSeq Acc Id: NM_029357   ⟹   NP_083633
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,329,747 - 38,342,815 (-)NCBI
GRCm381838,196,694 - 38,209,762 (-)NCBI
MGSCv371838,356,348 - 38,369,416 (-)RGD
Celera1839,540,949 - 39,554,018 (-)RGD
cM Map18 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006526320   ⟹   XP_006526383
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,318,967 - 38,344,439 (-)NCBI
GRCm381838,185,914 - 38,210,181 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006526322   ⟹   XP_006526385
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,318,967 - 38,342,721 (-)NCBI
GRCm381838,185,914 - 38,209,671 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006526323   ⟹   XP_006526386
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,318,967 - 38,336,917 (-)NCBI
GRCm381838,185,914 - 38,203,871 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006526324   ⟹   XP_006526387
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,318,967 - 38,344,439 (-)NCBI
GRCm381838,185,914 - 38,210,185 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017318005   ⟹   XP_017173494
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391838,329,747 - 38,344,439 (-)NCBI
GRCm381838,196,694 - 38,210,182 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_083633   ⟸   NM_029357
- Peptide Label: isoform 2 precursor
- UniProtKB: Q8CFX3 (UniProtKB/TrEMBL),   Q8QZT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006526383   ⟸   XM_006526320
- Peptide Label: isoform X1
- UniProtKB: F7BJK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006526385   ⟸   XM_006526322
- Peptide Label: isoform X2
- UniProtKB: F7BJK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006526386   ⟸   XM_006526323
- Peptide Label: isoform X2
- UniProtKB: F7BJK1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006526387   ⟸   XM_006526324
- Peptide Label: isoform X3
- UniProtKB: Q8QZT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017173494   ⟸   XM_017318005
- Peptide Label: isoform X4
- UniProtKB: Q8QZT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000125309   ⟸   ENSMUST00000159405
RefSeq Acc Id: ENSMUSP00000141877   ⟸   ENSMUST00000194312
RefSeq Acc Id: ENSMUSP00000124732   ⟸   ENSMUST00000160721
RefSeq Acc Id: ENSMUSP00000142328   ⟸   ENSMUST00000193828
RefSeq Acc Id: ENSMUSP00000125576   ⟸   ENSMUST00000161701
RefSeq Acc Id: ENSMUSP00000055199   ⟸   ENSMUST00000057185
RefSeq Acc Id: NP_001390724   ⟸   NM_001403795
- Peptide Label: isoform 1 precursor
- UniProtKB: F7BJK1 (UniProtKB/TrEMBL)
Protein Domains
Cadherin   Protocadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CFX3-F1-model_v2 AlphaFold Q8CFX3 1-1038 view protein structure

Promoters
RGD ID:13677612
Promoter ID:EPDNEW_M22956
Type:multiple initiation site
Name:Pcdh1_2
Description:Mus musculus protocadherin 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M22957  EPDNEW_M22958  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381838,197,819 - 38,197,879EPDNEW
RGD ID:13677616
Promoter ID:EPDNEW_M22957
Type:multiple initiation site
Name:Pcdh1_3
Description:Mus musculus protocadherin 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M22956  EPDNEW_M22958  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381838,203,807 - 38,203,867EPDNEW
RGD ID:13677618
Promoter ID:EPDNEW_M22958
Type:multiple initiation site
Name:Pcdh1_1
Description:Mus musculus protocadherin 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M22956  EPDNEW_M22957  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381838,209,777 - 38,209,837EPDNEW
RGD ID:6829433
Promoter ID:MM_KWN:25078
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Liver,   Lung
Transcripts:ENSMUST00000115597,   ENSMUST00000115599,   OTTMUST00000084084
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361838,357,241 - 38,358,337 (-)MPROMDB
RGD ID:6829435
Promoter ID:MM_KWN:25079
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Liver,   Lung
Transcripts:OTTMUST00000084083
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361838,362,611 - 38,363,587 (-)MPROMDB
RGD ID:6829462
Promoter ID:MM_KWN:25080
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Liver,   Lung
Transcripts:NM_029357,   OTTMUST00000084081
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361838,369,191 - 38,369,792 (-)MPROMDB
RGD ID:6829434
Promoter ID:MM_KWN:25081
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Kidney,   Liver
Transcripts:OTTMUST00000084085,   OTTMUST00000084086
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361838,371,436 - 38,372,502 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:104692 AgrOrtholog
Ensembl Genes ENSMUSG00000051375 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000057185 ENTREZGENE
  ENSMUST00000057185.13 UniProtKB/TrEMBL
  ENSMUST00000159405.3 UniProtKB/TrEMBL
  ENSMUST00000160721.8 UniProtKB/TrEMBL
  ENSMUST00000161701 ENTREZGENE
  ENSMUST00000161701.3 UniProtKB/TrEMBL
  ENSMUST00000193828.2 UniProtKB/TrEMBL
  ENSMUST00000194312.2 UniProtKB/TrEMBL
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_N UniProtKB/TrEMBL
  Protocadherin UniProtKB/TrEMBL
MGD MGI:104692 ENTREZGENE
NCBI Gene 75599 ENTREZGENE
PANTHER CADHERIN-23 UniProtKB/TrEMBL
  CADHERIN-87A UniProtKB/TrEMBL
  CADHERIN-87A UniProtKB/TrEMBL
  PROTOCADHERIN-1 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_2 UniProtKB/TrEMBL
  Protocadherin UniProtKB/TrEMBL
PhenoGen Pcdh1 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt A0A0A6YX79_MOUSE UniProtKB/TrEMBL
  A0A0A6YY88_MOUSE UniProtKB/TrEMBL
  E0CXD4_MOUSE UniProtKB/TrEMBL
  F7BJK1 ENTREZGENE, UniProtKB/TrEMBL
  Q2TJH4_MOUSE UniProtKB/TrEMBL
  Q2TJI7_MOUSE UniProtKB/TrEMBL
  Q2TJI8_MOUSE UniProtKB/TrEMBL
  Q2TJI9_MOUSE UniProtKB/TrEMBL
  Q8CFX3 ENTREZGENE, UniProtKB/TrEMBL
  Q8QZT6 ENTREZGENE, UniProtKB/TrEMBL
  Q9CVI3_MOUSE UniProtKB/TrEMBL