Pcdh18 (protocadherin 18) - Rat Genome Database

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Gene: Pcdh18 (protocadherin 18) Rattus norvegicus
Analyze
Symbol: Pcdh18
Name: protocadherin 18
RGD ID: 1305870
Description: Predicted to enable calcium ion binding activity. Predicted to be involved in brain development and cell adhesion. Predicted to be located in plasma membrane. Orthologous to human PCDH18 (protocadherin 18); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC295027; MGC188762; protocadherin-18
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82135,982,929 - 135,996,917 (-)NCBIGRCr8
mRatBN7.22133,831,996 - 133,845,992 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2133,832,001 - 133,845,883 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2140,395,361 - 140,409,080 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02138,507,905 - 138,521,624 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02133,137,085 - 133,150,804 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02138,819,957 - 138,833,932 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2138,819,960 - 138,833,933 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02158,301,727 - 158,315,708 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42138,615,496 - 138,629,181 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12138,565,226 - 138,579,122 (-)NCBI
Celera2128,336,949 - 128,350,631 (-)NCBICelera
Cytogenetic Map2q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-diaminotoluene  (ISO)
2-methylcholine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
antirheumatic drug  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bucladesine  (ISO)
cadmium dichloride  (EXP)
cantharidin  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
diallyl trisulfide  (ISO)
diquat  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
fipronil  (EXP)
fulvestrant  (ISO)
furan  (EXP)
gentamycin  (EXP)
glafenine  (EXP)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
maneb  (ISO)
medroxyprogesterone acetate  (ISO)
mercury dibromide  (ISO)
methimazole  (EXP)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP)
paraquat  (ISO)
phenylmercury acetate  (ISO)
pioglitazone  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
tetracycline  (ISO)
thioacetamide  (EXP)
toluene  (EXP)
trichloroethene  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
plasma membrane  (IBA,IEA)

Molecular Function

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11716507   PMID:12477932  


Genomics

Comparative Map Data
Pcdh18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82135,982,929 - 135,996,917 (-)NCBIGRCr8
mRatBN7.22133,831,996 - 133,845,992 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2133,832,001 - 133,845,883 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2140,395,361 - 140,409,080 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02138,507,905 - 138,521,624 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02133,137,085 - 133,150,804 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02138,819,957 - 138,833,932 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2138,819,960 - 138,833,933 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02158,301,727 - 158,315,708 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42138,615,496 - 138,629,181 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12138,565,226 - 138,579,122 (-)NCBI
Celera2128,336,949 - 128,350,631 (-)NCBICelera
Cytogenetic Map2q26NCBI
PCDH18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384137,518,918 - 137,532,494 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4137,518,918 - 137,532,494 (-)EnsemblGRCh38hg38GRCh38
GRCh374138,440,072 - 138,453,648 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364138,659,522 - 138,673,079 (-)NCBINCBI36Build 36hg18NCBI36
Build 344138,798,439 - 138,811,234NCBI
Celera4135,775,766 - 135,789,284 (-)NCBICelera
Cytogenetic Map4q28.3NCBI
HuRef4134,169,500 - 134,183,048 (-)NCBIHuRef
CHM1_14138,416,576 - 138,430,133 (-)NCBICHM1_1
T2T-CHM13v2.04140,842,322 - 140,855,898 (-)NCBIT2T-CHM13v2.0
Pcdh18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39349,697,745 - 49,711,723 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl349,697,745 - 49,711,774 (-)EnsemblGRCm39 Ensembl
GRCm38349,743,291 - 49,757,383 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl349,743,296 - 49,757,325 (-)EnsemblGRCm38mm10GRCm38
MGSCv37349,547,218 - 49,561,238 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36349,839,491 - 49,853,476 (-)NCBIMGSCv36mm8
Celera349,500,040 - 49,514,007 (-)NCBICelera
Cytogenetic Map3CNCBI
cM Map321.67NCBI
Pcdh18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554285,846,699 - 5,859,099 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554285,846,697 - 5,859,028 (+)NCBIChiLan1.0ChiLan1.0
PCDH18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23135,379,151 - 135,392,206 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14135,775,413 - 135,789,023 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04129,869,955 - 129,882,777 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14141,189,773 - 141,203,382 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4141,188,849 - 141,203,382 (-)Ensemblpanpan1.1panPan2
PCDH18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1194,967,926 - 4,982,470 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl194,967,925 - 4,982,468 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha195,215,271 - 5,229,879 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0195,040,135 - 5,054,778 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl195,040,129 - 5,054,772 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1194,968,042 - 4,982,631 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0195,332,409 - 5,347,023 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0195,696,878 - 5,711,500 (+)NCBIUU_Cfam_GSD_1.0
Pcdh18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530154,166,217 - 54,178,791 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936770478,405 - 491,786 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936770478,480 - 491,786 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCDH18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl889,321,491 - 89,335,388 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1889,321,487 - 89,335,406 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PCDH18
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1784,509,271 - 84,522,975 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl784,509,838 - 84,522,893 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603763,976,269 - 63,989,176 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcdh18
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477717,969,214 - 17,982,153 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477717,969,958 - 17,982,099 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcdh18
61 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:147
Count of miRNA genes:100
Interacting mature miRNAs:121
Transcripts:ENSRNOT00000013343
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
61438Cia7Collagen induced arthritis QTL 74.60.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)259324377141596857Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)272532993157142209Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)276539322150540526Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
2299162Iddm32Insulin dependent diabetes mellitus QTL 322.36blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)278665616143657569Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
7207808Bmd89Bone mineral density QTL 894.1femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)288862519133862519Rat
2300165Bmd49Bone mineral density QTL 494.80.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)288862519133862519Rat
2300170Bmd45Bone mineral density QTL 4512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)288862519133862519Rat
2300185Bmd46Bone mineral density QTL 468.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)288862519133862519Rat
1598862Glom9Glomerulus QTL 93.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)292337601137337601Rat
1598863Cm65Cardiac mass QTL 652.3heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)292337601137337601Rat
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2102803808147803808Rat
8662836Vetf8Vascular elastic tissue fragility QTL 80.66thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2104559726149559726Rat
1581552Pur12Proteinuria QTL 125.190.0009urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)2112103657148076632Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1354594Despr10Despair related QTL 100.00000249locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)2114654253159654253Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527143657569Rat
1359035Bp276Blood pressure QTL 276arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527143657569Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2114837527185876470Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
5135226Leukc2Leukocyte quantity QTL 2eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)2118111229149559726Rat
1582257Gluco21Glucose level QTL 213.10.0035blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2118111229157142209Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2118189491163189491Rat
1581578Cm49Cardiac mass QTL 494.90.01heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2127447387143657569Rat
1358360Sradr2Stress Responsive Adrenal Weight QTL 210.24adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)2129164097152195315Rat
6907363Bp357Blood pressure QTL 3574.10.002arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2129540907174540907Rat


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 22 9 9 4 9 1 1 51 22 32 10 1
Low 3 21 48 32 15 32 7 10 23 13 4 1 7
Below cutoff 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013343   ⟹   ENSRNOP00000013343
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2133,832,001 - 133,845,883 (-)Ensembl
Rnor_6.0 Ensembl2138,819,960 - 138,833,933 (-)Ensembl
RefSeq Acc Id: NM_001100524   ⟹   NP_001093994
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82135,983,144 - 135,996,826 (-)NCBI
mRatBN7.22133,832,211 - 133,845,893 (-)NCBI
Rnor_6.02138,820,183 - 138,833,865 (-)NCBI
Rnor_5.02158,301,727 - 158,315,708 (-)NCBI
RGSC_v3.42138,615,496 - 138,629,181 (-)RGD
Celera2128,336,949 - 128,350,631 (-)RGD
Sequence:
RefSeq Acc Id: XM_006232322   ⟹   XP_006232384
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82135,982,929 - 135,996,917 (-)NCBI
mRatBN7.22133,831,996 - 133,845,992 (-)NCBI
Rnor_6.02138,819,957 - 138,833,932 (-)NCBI
Rnor_5.02158,301,727 - 158,315,708 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001093994 (Get FASTA)   NCBI Sequence Viewer  
  XP_006232384 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI68716 (Get FASTA)   NCBI Sequence Viewer  
  ABJ52185 (Get FASTA)   NCBI Sequence Viewer  
  EDM15003 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013343
  ENSRNOP00000013343.6
Reference Protein Sequences
RefSeq Acc Id: NP_001093994   ⟸   NM_001100524
- Peptide Label: precursor
- UniProtKB: B5DEL4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006232384   ⟸   XM_006232322
- Peptide Label: isoform X1
- UniProtKB: F7EKI5 (UniProtKB/TrEMBL),   A6JV49 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013343   ⟸   ENSRNOT00000013343
Protein Domains
Cadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F7EKI5-F1-model_v2 AlphaFold F7EKI5 1-1134 view protein structure

Transcriptome

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

Promoters
RGD ID:13691314
Promoter ID:EPDNEW_R1839
Type:multiple initiation site
Name:Pcdh18_1
Description:protocadherin 18
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02138,833,855 - 138,833,915EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305870 AgrOrtholog
BioCyc Gene G2FUF-53148 BioCyc
Ensembl Genes ENSRNOG00000009949 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013343.7 UniProtKB/TrEMBL
Gene3D-CATH Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Cadherin_N UniProtKB/TrEMBL
KEGG Report rno:295027 UniProtKB/TrEMBL
NCBI Gene 295027 ENTREZGENE
PANTHER CADHERIN-87A UniProtKB/TrEMBL
  PTHR24028:SF9 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
  Cadherin_2 UniProtKB/TrEMBL
PhenoGen Pcdh18 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009949 RatGTEx
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt A6JV49 ENTREZGENE, UniProtKB/TrEMBL
  B5DEL4 ENTREZGENE, UniProtKB/TrEMBL
  F7EKI5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Pcdh18  protocadherin 18   Pcdh18_predicted  protocadherin 18 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pcdh18_predicted  protocadherin 18 (predicted)      Symbol and Name status set to approved 70820 APPROVED