Pcdh9 (protocadherin 9) - Rat Genome Database

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Gene: Pcdh9 (protocadherin 9) Rattus norvegicus
Analyze
Symbol: Pcdh9
Name: protocadherin 9
RGD ID: 1306348
Description: Predicted to enable calcium ion binding activity. Involved in forebrain development. Is active in glutamatergic synapse and synaptic membrane. Orthologous to human PCDH9 (protocadherin 9); INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC120097141; LOC306091; protocadherin-9; uncharacterized LOC120097141
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81575,748,472 - 76,646,644 (-)NCBIGRCr8
GRCr81576,078,024 - 76,127,778 (-)NCBIGRCr8
mRatBN7.21569,340,108 - 70,237,531 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1569,340,645 - 70,237,538 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1573,385,787 - 74,283,083 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01574,471,032 - 75,368,337 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01571,367,999 - 72,310,028 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01576,787,108 - 77,738,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01580,341,840 - 80,658,843 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01580,956,263 - 81,286,488 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41575,827,180 - 76,739,147 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11575,842,960 - 76,753,010 (-)NCBI
Celera1568,728,387 - 69,614,167 (-)NCBICelera
Cytogenetic Map15q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcdh9Ratchromosome 13q14 deletion syndrome  ISOPCDH9 (Homo sapiens)8554872ClinVar Annotator: match by term: Chromosome 13q14 deletion syndromeClinVar 
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcdh9Ratautism spectrum disorder  ISOPCDH9 (Homo sapiens)11554173CTD Direct Evidence: marker/mechanismCTDPMID:18252227

1 to 20 of 90 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcdh9Rat1,2-dimethylhydrazine multiple interactionsEXP 6480464[APC protein affects the susceptibility to 1 and 2-Dimethylhydrazine] which results in decreased expression of PCDH9 mRNACTDPMID:27840820
Pcdh9Rat15-acetyldeoxynivalenol increases expressionISOPCDH9 (Homo sapiens)648046415-acetyldeoxynivalenol results in increased expression of PCDH9 mRNACTDPMID:23792671
Pcdh9Rat17alpha-ethynylestradiol increases expressionEXP 6480464Ethinyl Estradiol results in increased expression of PCDH9 mRNACTDPMID:29097150
Pcdh9Rat17beta-estradiol affects expressionISOPCDH9 (Homo sapiens)6480464Estradiol affects the expression of PCDH9 mRNACTDPMID:22574217
Pcdh9Rat17beta-estradiol multiple interactionsISOPCDH9 (Homo sapiens)6480464[Estradiol co-treated with Progesterone] results in increased expression of PCDH9 mRNA and [Estradiol co-treated with TGFB1 protein] results in increased expression of PCDH9 mRNACTDPMID:20660070 and PMID:30165855
Pcdh9Rat2,2',4,4',5,5'-hexachlorobiphenyl multiple interactionsISOPcdh9 (Mus musculus)6480464[2 more ...CTDPMID:25510870
Pcdh9Rat2,2',4,4'-Tetrabromodiphenyl ether decreases expressionEXP 64804642 more ...CTDPMID:27291303
Pcdh9Rat2,2',5,5'-tetrachlorobiphenyl multiple interactionsISOPcdh9 (Mus musculus)6480464[2 more ...CTDPMID:25510870
Pcdh9Rat2-palmitoylglycerol increases expressionISOPCDH9 (Homo sapiens)64804642-palmitoylglycerol results in increased expression of PCDH9 mRNACTDPMID:37199045
Pcdh9Rat4,4'-sulfonyldiphenol increases expressionISOPcdh9 (Mus musculus)6480464bisphenol S results in increased expression of PCDH9 mRNACTDPMID:30951980
Pcdh9Rat6-propyl-2-thiouracil decreases expressionEXP 6480464Propylthiouracil results in decreased expression of PCDH9 mRNACTDPMID:24780913
Pcdh9Rataflatoxin B1 decreases expressionISOPCDH9 (Homo sapiens)6480464Aflatoxin B1 results in decreased expression of PCDH9 mRNACTDPMID:22100608
Pcdh9Rataflatoxin B1 increases methylationISOPCDH9 (Homo sapiens)6480464Aflatoxin B1 results in increased methylation of PCDH9 exonCTDPMID:30157460
Pcdh9Rataflatoxin B1 decreases methylationISOPCDH9 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of PCDH9 geneCTDPMID:27153756
Pcdh9RatAflatoxin B2 alpha affects methylationISOPCDH9 (Homo sapiens)6480464aflatoxin B2 affects the methylation of PCDH9 intronCTDPMID:30157460
Pcdh9Ratall-trans-retinoic acid increases expressionISOPCDH9 (Homo sapiens)6480464Tretinoin results in increased expression of PCDH9 mRNACTDPMID:21934132 and PMID:23724009
Pcdh9Ratamitrole decreases expressionEXP 6480464Amitrole results in decreased expression of PCDH9 mRNACTDPMID:38685447
Pcdh9Ratarsane affects methylationISOPCDH9 (Homo sapiens)6480464Arsenic affects the methylation of PCDH9 geneCTDPMID:25304211
Pcdh9Ratarsenic atom affects methylationISOPCDH9 (Homo sapiens)6480464Arsenic affects the methylation of PCDH9 geneCTDPMID:25304211
Pcdh9Ratarsenite(3-) multiple interactionsISOPcdh9 (Mus musculus)6480464TRP53 protein affects the reaction [arsenite results in increased expression of PCDH9 mRNA]CTDPMID:18929588

1 to 20 of 90 rows

Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcdh9Ratcell adhesion involved_inIBAMGI:106671 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Pcdh9Ratforebrain development  IEP 2316761 RGD 
Pcdh9Rathomophilic cell adhesion via plasma membrane adhesion molecules involved_inIEAInterPro:IPR0021261600115GO_REF:0000002InterProGO_REF:0000002

Cellular Component
1 to 9 of 9 rows

  
1 to 9 of 9 rows

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Pcdh9Ratcalcium ion binding enablesIEAUniRule:UR0004134501600115GO_REF:0000104UniProtGO_REF:0000104
Pcdh9Ratprotein binding enablesISOPcdh9 (Mus musculus)1624291PR:P62137 PMID:15905963RGDPMID:15905963


#
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. Spatiotemporal expression pattern of non-clustered protocadherin family members in the developing rat brain. Kim SY, etal., Neuroscience. 2007 Jul 29;147(4):996-1021. Epub 2007 Jul 5.
3. Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts. Loh KH, etal., Cell. 2016 Aug 25;166(5):1295-1307.e21. doi: 10.1016/j.cell.2016.07.041.
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
PMID:22982106  



Pcdh9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81575,748,472 - 76,646,644 (-)NCBIGRCr8
GRCr81576,078,024 - 76,127,778 (-)NCBIGRCr8
mRatBN7.21569,340,108 - 70,237,531 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1569,340,645 - 70,237,538 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1573,385,787 - 74,283,083 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01574,471,032 - 75,368,337 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01571,367,999 - 72,310,028 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01576,787,108 - 77,738,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01580,341,840 - 80,658,843 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01580,956,263 - 81,286,488 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41575,827,180 - 76,739,147 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11575,842,960 - 76,753,010 (-)NCBI
Celera1568,728,387 - 69,614,167 (-)NCBICelera
Cytogenetic Map15q21NCBI
PCDH9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381366,302,834 - 67,230,336 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1366,302,834 - 67,230,445 (-)EnsemblGRCh38hg38GRCh38
GRCh371366,876,966 - 67,804,468 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361365,774,967 - 66,702,464 (-)NCBINCBI36Build 36hg18NCBI36
Build 341365,774,967 - 66,702,464NCBI
Celera1347,778,636 - 48,706,116 (-)NCBICelera
Cytogenetic Map13q21.32NCBI
HuRef1347,575,260 - 48,502,804 (-)NCBIHuRef
CHM1_11366,844,545 - 67,771,982 (-)NCBICHM1_1
T2T-CHM13v2.01365,522,767 - 66,450,396 (-)NCBIT2T-CHM13v2.0
Pcdh9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391493,251,136 - 94,132,619 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1493,250,846 - 94,128,115 (-)EnsemblGRCm39 Ensembl
GRCm381493,013,700 - 93,892,834 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1493,013,410 - 93,890,679 (-)EnsemblGRCm38mm10GRCm38
MGSCv371493,412,920 - 94,287,951 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361491,896,835 - 92,773,764 (-)NCBIMGSCv36mm8
MGSCv361484,158,372 - 85,033,109 (-)NCBIMGSCv36mm8
Celera1490,651,091 - 91,529,532 (-)NCBICelera
Cytogenetic Map14E2.1NCBI
cM Map1445.8NCBI
Pcdh9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540438,667,015 - 39,532,423 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540438,666,480 - 39,534,211 (+)NCBIChiLan1.0ChiLan1.0
PCDH9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21467,859,201 - 68,775,102 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11366,450,616 - 67,366,559 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01347,512,960 - 48,430,521 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11366,308,482 - 67,224,143 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1366,310,212 - 67,222,134 (-)Ensemblpanpan1.1panPan2
PCDH9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12221,326,040 - 22,212,847 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2221,327,856 - 22,213,083 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2221,176,900 - 22,063,212 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02221,577,598 - 22,465,466 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2221,579,414 - 22,465,684 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12221,278,289 - 22,165,850 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02221,365,500 - 22,246,733 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02221,419,187 - 22,313,542 (-)NCBIUU_Cfam_GSD_1.0
Pcdh9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945138,092,918 - 138,942,759 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936553424,988 - 1,272,450 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936553424,425 - 971,388 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCDH9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1138,523,033 - 39,453,741 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11138,522,221 - 39,455,166 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21141,808,073 - 42,265,226 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PCDH9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1345,256,171 - 46,194,724 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660461,136,960 - 2,056,266 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcdh9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474827,606,224 - 28,543,269 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474827,604,426 - 28,543,256 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.

.
Variants in Pcdh9
6197 total Variants

Predicted Target Of
Summary Value
Count of predictions:160
Count of miRNA genes:125
Interacting mature miRNAs:133
Transcripts:ENSRNOT00000057924
Prediction methods:Microtar, Miranda, Rnahybrid
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.


1 to 10 of 25 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
724548Niddm55Non-insulin dependent diabetes mellitus QTL 550.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)156832736073699069Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)155559608995018120Rat

1 to 10 of 25 rows
D15Rat94  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,625,793 - 69,625,966 (+)MAPPERmRatBN7.2
Rnor_6.01577,072,146 - 77,072,316NCBIRnor6.0
Rnor_5.01580,627,077 - 80,627,247UniSTSRnor5.0
RGSC_v3.41576,115,380 - 76,115,762RGDRGSC3.4
RGSC_v3.41576,115,491 - 76,115,661UniSTSRGSC3.4
RGSC_v3.11576,131,160 - 76,131,542RGD
Celera1569,012,625 - 69,012,795UniSTS
SHRSP x BN Map1541.3498RGD
SHRSP x BN Map1541.3498UniSTS
Cytogenetic Map15q21UniSTS
D15Got211  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,545,428 - 69,545,505 (+)MAPPERmRatBN7.2
Rnor_6.01576,991,703 - 76,991,779NCBIRnor6.0
Rnor_5.01580,546,433 - 80,546,509UniSTSRnor5.0
RGSC_v3.41576,034,917 - 76,034,993UniSTSRGSC3.4
Celera1568,932,391 - 68,932,467UniSTS
Cytogenetic Map15q21UniSTS
BE102165  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,898,848 - 69,898,997 (+)MAPPERmRatBN7.2
Rnor_6.01577,397,613 - 77,397,761NCBIRnor6.0
Rnor_5.01580,949,492 - 80,949,640UniSTSRnor5.0
RGSC_v3.41576,396,481 - 76,396,629UniSTSRGSC3.4
Celera1569,278,271 - 69,278,419UniSTS
Cytogenetic Map15q21UniSTS
RH45841  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,340,410 - 69,340,548 (+)MAPPERmRatBN7.2
Rnor_6.01576,787,411 - 76,787,548NCBIRnor6.0
Rnor_5.01580,342,141 - 80,342,278UniSTSRnor5.0
RGSC_v3.41575,827,481 - 75,827,618UniSTSRGSC3.4
Celera1568,728,689 - 68,728,826UniSTS
Cytogenetic Map15q21UniSTS
BE102662  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,705,889 - 69,706,061 (+)MAPPERmRatBN7.2
Rnor_6.01577,164,994 - 77,165,165NCBIRnor6.0
Rnor_5.01580,719,657 - 80,719,828UniSTSRnor5.0
RGSC_v3.41576,198,767 - 76,198,938UniSTSRGSC3.4
Celera1569,092,212 - 69,092,383UniSTS
Cytogenetic Map15q21UniSTS
RH137936  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21570,212,748 - 70,212,894 (+)MAPPERmRatBN7.2
Rnor_6.01577,713,859 - 77,714,004NCBIRnor6.0
Rnor_5.01581,263,572 - 81,263,717UniSTSRnor5.0
RGSC_v3.41576,714,386 - 76,714,531UniSTSRGSC3.4
Celera1569,591,251 - 69,591,396UniSTS
Cytogenetic Map15q21UniSTS
BF390670  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,913,712 - 69,913,909 (+)MAPPERmRatBN7.2
Rnor_6.01577,411,078 - 77,411,274NCBIRnor6.0
Rnor_5.01580,962,957 - 80,963,153UniSTSRnor5.0
RGSC_v3.41576,411,340 - 76,411,536UniSTSRGSC3.4
Celera1569,293,090 - 69,293,286UniSTS
Cytogenetic Map15q21UniSTS
fb39b03.x1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera1568,735,414 - 68,737,035UniSTS
Celera1568,735,432 - 68,737,035UniSTS
Cytogenetic Map15q21UniSTS
UniSTS:546922  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21569,340,247 - 69,341,246 (+)MAPPERmRatBN7.2
Rnor_6.01576,787,248 - 76,788,246NCBIRnor6.0
Rnor_5.01580,341,978 - 80,342,976UniSTSRnor5.0
Celera1568,728,525 - 68,729,524UniSTS
Cytogenetic Map15q21UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
8 10 48 113 61 60 29 25 29 6 185 95 93 45 55 31


1 to 30 of 30 rows
RefSeq Transcripts NM_001191688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431497 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431499 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197223 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197225 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_197227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599711 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599713 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063274318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063274319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063274320 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005494384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ863132 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 30 of 30 rows

Ensembl Acc Id: ENSRNOT00000057924   ⟹   ENSRNOP00000054733
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1569,340,645 - 70,237,538 (-)Ensembl
Rnor_6.0 Ensembl1577,733,402 - 77,736,892 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096830   ⟹   ENSRNOP00000077280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1569,340,645 - 70,237,538 (-)Ensembl
RefSeq Acc Id: NM_001191688   ⟹   NP_001178617
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,474 - 76,643,952 (-)NCBI
mRatBN7.21569,340,110 - 70,235,665 (-)NCBI
Rnor_6.01576,787,110 - 77,736,775 (-)NCBI
Rnor_5.01580,341,840 - 80,658,843 (-)NCBI
Rnor_5.01580,956,263 - 81,286,488 (-)NCBI
Celera1568,728,387 - 69,614,167 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770867   ⟹   XP_008769089
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,646,644 (-)NCBI
mRatBN7.21569,340,108 - 70,237,531 (-)NCBI
Rnor_6.01576,787,108 - 77,738,666 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599710   ⟹   XP_017455199
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,646,644 (-)NCBI
mRatBN7.21569,340,108 - 70,237,531 (-)NCBI
Rnor_6.01576,787,108 - 77,738,668 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599711   ⟹   XP_017455200
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,646,644 (-)NCBI
mRatBN7.21569,340,108 - 70,237,531 (-)NCBI
Rnor_6.01576,787,108 - 77,738,667 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599712   ⟹   XP_017455201
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,646,644 (-)NCBI
mRatBN7.21569,340,108 - 70,237,531 (-)NCBI
Rnor_6.01576,787,108 - 77,738,667 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599713   ⟹   XP_017455202
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,750,522 - 76,646,644 (-)NCBI
mRatBN7.21569,559,030 - 70,237,531 (-)NCBI
Rnor_6.01577,004,358 - 77,738,668 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093368   ⟹   XP_038949296
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,645,821 (-)NCBI
mRatBN7.21569,340,108 - 70,237,528 (-)NCBI
RefSeq Acc Id: XM_039093371   ⟹   XP_038949299
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,817,746 - 76,646,644 (-)NCBI
mRatBN7.21569,409,392 - 70,237,531 (-)NCBI
RefSeq Acc Id: XM_039093372   ⟹   XP_038949300
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,750,522 - 76,646,644 (-)NCBI
mRatBN7.21569,559,030 - 70,237,531 (-)NCBI
RefSeq Acc Id: XM_039093373   ⟹   XP_038949301
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,750,522 - 76,646,644 (-)NCBI
mRatBN7.21569,559,030 - 70,237,531 (-)NCBI
RefSeq Acc Id: XM_039093374   ⟹   XP_038949302
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,817,748 - 76,646,644 (-)NCBI
mRatBN7.21569,409,395 - 70,237,531 (-)NCBI
RefSeq Acc Id: XM_063274318   ⟹   XP_063130388
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,645,820 (-)NCBI
RefSeq Acc Id: XM_063274319   ⟹   XP_063130389
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,748,472 - 76,645,820 (-)NCBI
RefSeq Acc Id: XM_063274320   ⟹   XP_063130390
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81575,817,747 - 76,646,644 (-)NCBI
RefSeq Acc Id: XR_005494384
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81576,078,024 - 76,127,778 (-)NCBI
1 to 5 of 16 rows
1 to 5 of 16 rows
RefSeq Acc Id: NP_001178617   ⟸   NM_001191688
- Peptide Label: precursor
- UniProtKB: A0A8I5ZK96 (UniProtKB/TrEMBL),   A6HU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769089   ⟸   XM_008770867
- Peptide Label: isoform X4
- UniProtKB: A6HU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455199   ⟸   XM_017599710
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZK96 (UniProtKB/TrEMBL),   A6HU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455200   ⟸   XM_017599711
- Peptide Label: isoform X2
- UniProtKB: F1LS01 (UniProtKB/TrEMBL),   A6HU38 (UniProtKB/TrEMBL),   A6HU40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455201   ⟸   XM_017599712
- Peptide Label: isoform X3
- UniProtKB: A6HU40 (UniProtKB/TrEMBL)
- Sequence:
Cadherin

Name Modeler Protein Id AA Range Protein Structure
AF-F1LS01-F1-model_v2 AlphaFold F1LS01 1-1032 view protein structure


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



1 to 30 of 30 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-12869 BioCyc
Ensembl Genes ENSRNOG00000038068 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000057924.5 UniProtKB/TrEMBL
  ENSRNOT00000096830.1 UniProtKB/TrEMBL
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_N UniProtKB/TrEMBL
  Protocadherin UniProtKB/TrEMBL
  Protocadherin/Cadherin-CA UniProtKB/TrEMBL
KEGG Report rno:306091 UniProtKB/TrEMBL
NCBI Gene 306091 ENTREZGENE
PANTHER CADHERIN-87A UniProtKB/TrEMBL
  PROTOCADHERIN-9 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_2 UniProtKB/TrEMBL
  Protocadherin UniProtKB/TrEMBL
PharmGKB PCDH9 RGD
PhenoGen Pcdh9 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000038068 RatGTEx
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP SSF49313 UniProtKB/TrEMBL
UniProt A0A8I5ZK96 ENTREZGENE, UniProtKB/TrEMBL
  A6HU38 ENTREZGENE, UniProtKB/TrEMBL
  A6HU40 ENTREZGENE, UniProtKB/TrEMBL
  F1LS01 ENTREZGENE, UniProtKB/TrEMBL
1 to 30 of 30 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-07-18 Pcdh9  protocadherin 9  LOC120097141  uncharacterized LOC120097141  Data Merged 737654 PROVISIONAL
2021-01-26 LOC120097141  uncharacterized LOC120097141      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Pcdh9  protocadherin 9   Pcdh9_predicted  protocadherin 9 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pcdh9_predicted  protocadherin 9 (predicted)      Symbol and Name status set to approved 70820 APPROVED