Gpc1 (glypican 1) - Rat Genome Database

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Gene: Gpc1 (glypican 1) Rattus norvegicus
Analyze
Symbol: Gpc1
Name: glypican 1
RGD ID: 61853
Description: Enables collagen V binding activity. Involved in Schwann cell differentiation and myelin assembly. Located in neuronal cell body. Orthologous to human GPC1 (glypican 1); PARTICIPATES IN glypican signaling pathway; Hedgehog signaling pathway; INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: glypican-1; GPI-anchored cell surface heparan sulfate proteoglycan; HSPG M12; HSPGM12
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Is Marker For: Strains:   SD  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89100,843,645 - 100,871,458 (+)NCBIGRCr8
mRatBN7.2993,396,234 - 93,424,047 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,396,234 - 93,424,047 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9101,832,104 - 101,859,907 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09106,967,887 - 106,995,694 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09105,324,039 - 105,351,842 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0999,998,275 - 100,026,818 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl999,998,275 - 100,026,818 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0999,664,180 - 99,692,723 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera990,933,123 - 90,960,752 (+)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-diaminotoluene  (ISO)
2-bromohexadecanoic acid  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
3beta-(2-diethylaminoethoxy)androst-5-en-17-one hydrochloride  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
amitrole  (EXP)
antimycin A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
bicalutamide  (ISO)
bisphenol A  (EXP,ISO)
butan-1-ol  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
cantharidin  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
deguelin  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
Echimidine  (EXP)
endosulfan  (EXP)
epoxiconazole  (EXP,ISO)
ethanol  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
Heliotrine  (EXP)
heparan sulfate  (ISO)
inulin  (ISO)
isobutanol  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
linuron  (EXP)
methylparaben  (ISO)
nitric oxide  (ISO)
nitroxyl  (ISO)
ochratoxin A  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
picoxystrobin  (ISO)
piroxicam  (ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
senecionine  (EXP)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triphenyl phosphate  (ISO)
trovafloxacin  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
collagen V binding  (IPI)
copper ion binding  (IEA,ISO,ISS)
fibroblast growth factor binding  (IBA,IEA,ISO,ISS)
laminin binding  (IEA,ISO,ISS)
protein binding  (IPI,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Regulation of glypican-1, syndecan-1 and syndecan-4 mRNAs expression by follicle-stimulating hormone, cAMP increase and calcium influx during rat Sertoli cell development. Brucato S, etal., Eur J Biochem 2002 Jul;269(14):3461-9.
2. Glypican-1 and alpha4(V) collagen are required for Schwann cell myelination. Chernousov MA, etal., J Neurosci. 2006 Jan 11;26(2):508-17.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Cloning of a major heparan sulfate proteoglycan from brain and identification as the rat form of glypican. Karthikeyan L, etal., Biochem Biophys Res Commun 1992 Oct 15;188(1):395-401.
6. Immunocytochemical and in situ hybridization studies of the heparan sulfate proteoglycan, glypican, in nervous tissue. Karthikeyan L, etal., J Cell Sci 1994 Nov;107 ( Pt 11):3213-22.
7. Neuronal expression of glypican, a cell-surface glycosylphosphatidylinositol-anchored heparan sulfate proteoglycan, in the adult rat nervous system. Litwack ED, etal., J Neurosci 1994 Jun;14(6):3713-24.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Comprehensive gene review and curation RGD comprehensive gene curation
15. Characterization of Slit protein interactions with glypican-1. Ronca F, etal., J Biol Chem. 2001 Aug 3;276(31):29141-7. Epub 2001 May 25.
16. Constitutive release of alpha4 type V collagen N-terminal domain by Schwann cells and binding to cell surface and extracellular matrix heparan sulfate proteoglycans. Rothblum K, etal., J Biol Chem. 2004 Dec 3;279(49):51282-8. Epub 2004 Sep 20.
17. Comprehensive Molecular Analyses of a Macrophage-Related Gene Signature With Regard to Prognosis, Immune Features, and Biomarkers for Immunotherapy in Hepatocellular Carcinoma Based on WGCNA and the LASSO Algorithm. Wang T, etal., Front Immunol. 2022 May 27;13:843408. doi: 10.3389/fimmu.2022.843408. eCollection 2022.
18. Dally-like core protein and its mammalian homologues mediate stimulatory and inhibitory effects on Hedgehog signal response. Williams EH, etal., Proc Natl Acad Sci U S A. 2010 Mar 30;107(13):5869-74. Epub 2010 Mar 15.
Additional References at PubMed
PMID:9469940   PMID:12477932   PMID:12655597   PMID:12732622   PMID:12914968   PMID:14707133   PMID:15016071   PMID:16452087   PMID:16723715   PMID:19199708   PMID:20100867   PMID:20515442  
PMID:21518435   PMID:22615373   PMID:23376485   PMID:23851278   PMID:25931508   PMID:26316108   PMID:27068509   PMID:27559042   PMID:32647868   PMID:35352799  


Genomics

Comparative Map Data
Gpc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89100,843,645 - 100,871,458 (+)NCBIGRCr8
mRatBN7.2993,396,234 - 93,424,047 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,396,234 - 93,424,047 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9101,832,104 - 101,859,907 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09106,967,887 - 106,995,694 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09105,324,039 - 105,351,842 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0999,998,275 - 100,026,818 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl999,998,275 - 100,026,818 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0999,664,180 - 99,692,723 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera990,933,123 - 90,960,752 (+)NCBICelera
Cytogenetic Map9q36NCBI
GPC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382240,435,663 - 240,468,076 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2240,435,663 - 240,468,076 (+)EnsemblGRCh38hg38GRCh38
GRCh372241,375,080 - 241,407,493 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362241,023,788 - 241,056,168 (+)NCBINCBI36Build 36hg18NCBI36
Build 342241,095,104 - 241,127,483NCBI
Celera2235,047,069 - 235,079,415 (+)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2233,131,263 - 233,163,487 (+)NCBIHuRef
CHM1_12241,381,165 - 241,413,509 (+)NCBICHM1_1
T2T-CHM13v2.02240,929,356 - 240,961,704 (+)NCBIT2T-CHM13v2.0
Gpc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39192,759,367 - 92,787,933 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl192,759,367 - 92,788,501 (+)EnsemblGRCm39 Ensembl
GRCm38192,831,645 - 92,860,211 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl192,831,645 - 92,860,779 (+)EnsemblGRCm38mm10GRCm38
MGSCv37194,728,263 - 94,756,773 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36194,662,092 - 94,690,602 (+)NCBIMGSCv36mm8
Celera195,776,004 - 95,804,554 (+)NCBICelera
Cytogenetic Map1DNCBI
cM Map146.6NCBI
Gpc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955542947,556 - 968,295 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955542947,556 - 968,295 (-)NCBIChiLan1.0ChiLan1.0
GPC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213143,110,895 - 143,143,597 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B143,126,093 - 143,158,562 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B127,684,839 - 127,717,294 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B246,509,247 - 246,523,569 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B246,511,082 - 246,523,569 (+)Ensemblpanpan1.1panPan2
GPC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12550,484,554 - 50,492,940 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2550,482,071 - 50,515,877 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2550,936,475 - 50,962,772 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02550,917,330 - 50,943,617 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2550,918,480 - 50,941,977 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12550,759,401 - 50,785,702 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02550,505,447 - 50,531,706 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02550,782,678 - 50,809,060 (+)NCBIUU_Cfam_GSD_1.0
Gpc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303192,090,303 - 192,100,688 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367451,118,732 - 1,127,169 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15139,457,669 - 139,484,670 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115139,457,866 - 139,483,704 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215154,436,077 - 154,449,277 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GPC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110126,464,383 - 126,496,686 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10126,464,801 - 126,497,897 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604072,906,497 - 72,938,406 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248474,832,488 - 4,853,851 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248474,832,610 - 4,853,849 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gpc1
124 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:227
Count of miRNA genes:134
Interacting mature miRNAs:172
Transcripts:ENSRNOT00000074395
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
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)992491589100929786Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat

Markers in Region
D9Got115  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,405,369 - 93,405,597 (+)MAPPERmRatBN7.2
Rnor_6.09100,007,411 - 100,007,638NCBIRnor6.0
Rnor_5.0999,673,316 - 99,673,543UniSTSRnor5.0
Celera990,942,081 - 90,942,308UniSTS
RH 3.4 Map9792.4RGD
RH 3.4 Map9792.4UniSTS
RH 2.0 Map9962.1RGD
Cytogenetic Map9q36UniSTS
BE095670  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,398,009 - 93,398,195 (+)MAPPERmRatBN7.2
Rnor_6.09100,000,051 - 100,000,236NCBIRnor6.0
Rnor_5.0999,665,956 - 99,666,141UniSTSRnor5.0
Celera990,934,721 - 90,934,906UniSTS
RH 3.4 Map9796.6UniSTS
Cytogenetic Map9q36UniSTS
RH133623  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,423,818 - 93,424,009 (+)MAPPERmRatBN7.2
Rnor_6.09100,026,590 - 100,026,780NCBIRnor6.0
Rnor_5.0999,692,495 - 99,692,685UniSTSRnor5.0
Celera990,960,524 - 90,960,714UniSTS
RH 3.4 Map9788.1UniSTS
Cytogenetic Map9q36UniSTS
BF390538  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,417,869 - 93,418,022 (+)MAPPERmRatBN7.2
Rnor_6.09100,019,944 - 100,020,096NCBIRnor6.0
Rnor_5.0999,685,849 - 99,686,001UniSTSRnor5.0
Celera990,954,575 - 90,954,727UniSTS
RH 3.4 Map9787.8UniSTS
Cytogenetic Map9q36UniSTS
UniSTS:498343  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,422,462 - 93,423,171 (+)MAPPERmRatBN7.2
Rnor_6.09100,025,234 - 100,025,942NCBIRnor6.0
Rnor_5.0999,691,139 - 99,691,847UniSTSRnor5.0
Celera990,959,168 - 90,959,876UniSTS
Cytogenetic Map9q36UniSTS
UniSTS:498431  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,422,905 - 93,422,979 (+)MAPPERmRatBN7.2
Rnor_6.09100,025,677 - 100,025,750NCBIRnor6.0
Rnor_5.0999,691,582 - 99,691,655UniSTSRnor5.0
Celera990,959,611 - 90,959,684UniSTS
Cytogenetic Map9q36UniSTS


Related Rat Strains
The following Strains have been annotated to Gpc1
SD    


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 3 141 69 18 3 18 36 45 246 96 109 33 24
Low 18 87 58 66 58 19 15 24
Below cutoff 71 71 71 21

Sequence


Ensembl Acc Id: ENSRNOT00000074395   ⟹   ENSRNOP00000066597
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl993,396,234 - 93,424,047 (+)Ensembl
Rnor_6.0 Ensembl999,998,275 - 100,026,818 (+)Ensembl
RefSeq Acc Id: NM_030828   ⟹   NP_110455
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89100,843,645 - 100,871,458 (+)NCBI
mRatBN7.2993,396,234 - 93,424,047 (+)NCBI
Rnor_6.0999,998,275 - 100,026,818 (+)NCBI
Rnor_5.0999,664,180 - 99,692,723 (+)NCBI
Celera990,933,123 - 90,960,752 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_110455 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41251 (Get FASTA)   NCBI Sequence Viewer  
  AAA86439 (Get FASTA)   NCBI Sequence Viewer  
  AAC53550 (Get FASTA)   NCBI Sequence Viewer  
  AAH61572 (Get FASTA)   NCBI Sequence Viewer  
  EDL91977 (Get FASTA)   NCBI Sequence Viewer  
  EDL91978 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066597.1
GenBank Protein P35053 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_110455   ⟸   NM_030828
- Peptide Label: precursor
- UniProtKB: P35053 (UniProtKB/Swiss-Prot),   Q6P7Q2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000066597   ⟸   ENSRNOT00000074395

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P35053-F1-model_v2 AlphaFold P35053 1-558 view protein structure

Transcriptome

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

Promoters
RGD ID:13696868
Promoter ID:EPDNEW_R7392
Type:initiation region
Name:Gpc1_1
Description:glypican 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7393  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0999,998,279 - 99,998,339EPDNEW
RGD ID:13696869
Promoter ID:EPDNEW_R7393
Type:multiple initiation site
Name:Gpc1_2
Description:glypican 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7392  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0999,998,422 - 99,998,482EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61853 AgrOrtholog
BioCyc Gene G2FUF-26676 BioCyc
Ensembl Genes ENSRNOG00000049437 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074395.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6887032 IMAGE-MGC_LOAD
InterPro Glypican UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glypican_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:58920 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72966 IMAGE-MGC_LOAD
NCBI Gene 58920 ENTREZGENE
PANTHER PTHR10822 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10822:SF8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Glypican UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Gpc1 PhenoGen
PROSITE GLYPICAN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000049437 RatGTEx
UniProt A6JQV9_RAT UniProtKB/TrEMBL
  A6JQW0_RAT UniProtKB/TrEMBL
  GPC1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6P7Q2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Gpc1  glypican 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to plasma membrane by means of glycosylphophatidylinositol anchors 625750
gene_domains compact conformation of the protein attributed to conservation of 14 cysteine residues within core protein and attachment of heparan sulfate consensus sequence at C-termini 625750
gene_drugs verapamil, the L-type voltage-operated calcium channel blocker stimulated the increase in mRNA expression in sertoli cells of 20 day old animals 625750
gene_expression expressed in sertoli cells 625750
gene_expression expressed in Sertoli cells 625750
gene_function functions by binding to a variety of extracellular matrix molecules and growth factors 625750
gene_process regulates Sertoli cell development 625750
gene_regulation mRNA expression in developing Sertoli cells is regulated by FSH mediated signaling 625750
gene_regulation expression is inhibited by FSH during Sertoli cell development 625750
gene_regulation expression regulated by PKC activation 625750
gene_regulation beta FGF and TGF-beta 1 in fibroblasts and mature oligodendrocytes decreased protein levels 625750