Gpc6 (glypican 6) - Rat Genome Database

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Gene: Gpc6 (glypican 6) Rattus norvegicus
Analyze
Symbol: Gpc6
Name: glypican 6
RGD ID: 1593308
Description: Involved in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane. Is active in glutamatergic synapse. Human ortholog(s) of this gene implicated in omodysplasia 1. Orthologous to human GPC6 (glypican 6); PARTICIPATES IN Hedgehog signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: glypican-6; LOC306163; LOC691984; similar to Glypican-6 precursor; similar to Gpc6 protein
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
GRCr815100,437,415 - 101,435,038 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl15100,437,943 - 101,435,027 (+)EnsemblGRCr8
mRatBN7.21594,030,218 - 95,027,883 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1594,029,884 - 95,024,006 (+)EnsemblmRatBN7.2
Rnor_6.015102,164,091 - 103,174,721 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15102,164,751 - 103,170,847 (+)Ensemblrn6Rnor6.0
Rnor_5.015105,607,785 - 106,611,654 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.415101,763,223 - 102,656,127 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1592,888,323 - 93,881,886 (+)NCBICelera
Cytogenetic Map15q24NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
CGP 52608  (ISO)
cisplatin  (ISO)
clothianidin  (ISO)
copper(II) chloride  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
D-mannitol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diethylstilbestrol  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
Lasiocarpine  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-nitrosodiethylamine  (ISO)
nickel atom  (ISO)
O-methyleugenol  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (EXP)
phenobarbital  (ISO)
potassium chromate  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
tributylstannane  (EXP)
trichostatin A  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Astrocyte glypicans 4 and 6 promote formation of excitatory synapses via GluA1 AMPA receptors. Allen NJ, etal., Nature. 2012 May 27;486(7403):410-4. doi: 10.1038/nature11059.
2. 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.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
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
Additional References at PubMed
PMID:16452087   PMID:21630459   PMID:21871017  


Genomics

Comparative Map Data
Gpc6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr815100,437,415 - 101,435,038 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl15100,437,943 - 101,435,027 (+)EnsemblGRCr8
mRatBN7.21594,030,218 - 95,027,883 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1594,029,884 - 95,024,006 (+)EnsemblmRatBN7.2
Rnor_6.015102,164,091 - 103,174,721 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15102,164,751 - 103,170,847 (+)Ensemblrn6Rnor6.0
Rnor_5.015105,607,785 - 106,611,654 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.415101,763,223 - 102,656,127 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1592,888,323 - 93,881,886 (+)NCBICelera
Cytogenetic Map15q24NCBI
GPC6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381393,216,529 - 94,408,020 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1393,226,807 - 94,408,020 (+)Ensemblhg38GRCh38
GRCh371393,879,060 - 95,060,274 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361392,677,096 - 93,853,948 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341392,677,095 - 93,853,948NCBI
Celera1374,727,460 - 75,908,516 (+)NCBICelera
Cytogenetic Map13q31.3-q32.1NCBI
HuRef1374,476,112 - 75,657,237 (+)NCBIHuRef
CHM1_11393,848,682 - 95,029,827 (+)NCBICHM1_1
T2T-CHM13v2.01392,430,763 - 93,611,616 (+)NCBIT2T-CHM13v2.0
Gpc6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914117,162,332 - 118,216,941 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl14117,162,727 - 118,213,956 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm3814116,924,920 - 117,979,529 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14116,925,315 - 117,976,544 (+)Ensemblmm10GRCm38
MGSCv3714117,324,537 - 118,378,751 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3614115,808,387 - 116,859,339 (+)NCBIMGSCv36mm8
Celera14115,484,341 - 116,531,683 (+)NCBICelera
Cytogenetic Map14E4NCBI
cM Map1460.34NCBI
Gpc6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540415,433,962 - 16,504,351 (-)Ensembl
ChiLan1.0NW_00495540415,429,811 - 16,504,973 (-)NCBIChiLan1.0ChiLan1.0
GPC6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21494,764,666 - 95,943,637 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11393,433,119 - 94,612,958 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01374,408,999 - 75,588,065 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11393,556,152 - 94,744,052 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1393,874,849 - 94,739,894 (+)EnsemblpanPan2panpan1.1
GPC6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12244,154,690 - 45,237,398 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2244,154,944 - 45,233,549 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2244,008,265 - 45,024,162 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02244,583,937 - 45,667,974 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2244,584,263 - 45,667,325 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12244,239,373 - 45,321,705 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02244,280,456 - 45,362,460 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02244,290,207 - 45,372,251 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Gpc6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945179,774,517 - 180,818,680 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647215,137,770 - 16,176,943 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647215,136,656 - 16,177,597 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GPC6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1162,438,453 - 63,560,897 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11162,436,143 - 63,560,908 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
GPC6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1372,075,622 - 73,242,678 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604628,496,652 - 29,624,562 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gpc6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462487997,257 - 1,192,604 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462487997,125 - 1,196,747 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Gpc6
6233 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:129
Count of miRNA genes:87
Interacting mature miRNAs:90
Transcripts:ENSRNOT00000072531, ENSRNOT00000074982
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1567588667101769107Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1575788062101769107Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)158226252098288169Rat
70182BpQTLcluster12Blood pressure QTL cluster 123.53arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)157369065795018120Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1576306099101769107Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)158226252098288169Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1558156477101769107Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)155559608995018120Rat
1581519Cm59Cardiac mass QTL 592.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)158885347095840528Rat
1331724Bp223Blood pressure QTL 2233.53715arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157369051895018228Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)157369051899794247Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1575788062101769107Rat

Markers in Region
D15Mgh5  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr815101,425,275 - 101,425,383 (+)Marker Load Pipeline
mRatBN7.21595,018,120 - 95,018,228 (+)MAPPERmRatBN7.2
Rnor_6.015103,164,962 - 103,165,069NCBIRnor6.0
Rnor_5.015106,602,088 - 106,602,195UniSTSRnor5.0
RGSC_v3.415102,741,229 - 102,741,337RGDRGSC3.4
RGSC_v3.415102,741,230 - 102,741,337UniSTSRGSC3.4
Celera1593,872,048 - 93,872,155UniSTS
RGSC_v3.115102,757,010 - 102,757,117RGD
RH 3.4 Map15649.6UniSTS
RH 3.4 Map15649.6RGD
SHRSP x BN Map1560.7698UniSTS
SHRSP x BN Map1560.7698RGD
Cytogenetic Map15q24UniSTS
D15Rat24  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr815100,848,961 - 100,849,091 (+)Marker Load Pipeline
mRatBN7.21594,441,768 - 94,441,898 (+)MAPPERmRatBN7.2
Rnor_6.015102,573,998 - 102,574,127NCBIRnor6.0
Rnor_5.015106,016,785 - 106,016,914UniSTSRnor5.0
RGSC_v3.415102,173,543 - 102,173,673RGDRGSC3.4
RGSC_v3.415102,173,544 - 102,173,673UniSTSRGSC3.4
Celera1593,299,727 - 93,299,856UniSTS
RGSC_v3.115102,189,324 - 102,189,453RGD
RH 3.4 Map16729.0UniSTS
RH 3.4 Map16729.0RGD
RH 2.0 Map16845.9RGD
SHRSP x BN Map1559.7198RGD
Cytogenetic Map15q24UniSTS
D15Rat51  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr815100,796,923 - 100,797,159 (+)Marker Load Pipeline
mRatBN7.21594,389,730 - 94,389,966 (+)MAPPERmRatBN7.2
Rnor_6.015102,522,908 - 102,523,143NCBIRnor6.0
Rnor_5.015105,965,695 - 105,965,930UniSTSRnor5.0
RGSC_v3.415102,122,539 - 102,122,775RGDRGSC3.4
RGSC_v3.415102,122,540 - 102,122,775UniSTSRGSC3.4
Celera1593,248,478 - 93,248,713UniSTS
RGSC_v3.115102,138,320 - 102,138,555RGD
RH 3.4 Map15642.8UniSTS
RH 3.4 Map15642.8RGD
RH 2.0 Map15539.1RGD
SHRSP x BN Map1560.7698RGD
Cytogenetic Map15q24UniSTS
D15Rat104  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr815100,571,077 - 100,571,314 (+)Marker Load Pipeline
mRatBN7.21594,163,880 - 94,164,117 (+)MAPPERmRatBN7.2
Rnor_6.015102,298,523 - 102,298,759NCBIRnor6.0
Rnor_5.015105,741,310 - 105,741,546UniSTSRnor5.0
RGSC_v3.415101,896,772 - 101,897,301RGDRGSC3.4
RGSC_v3.415101,897,012 - 101,897,248UniSTSRGSC3.4
Celera1593,022,852 - 93,023,092UniSTS
RGSC_v3.115101,912,792 - 101,913,028RGD
RH 3.4 Map15638.1UniSTS
RH 3.4 Map15638.1RGD
RH 2.0 Map15534.9RGD
SHRSP x BN Map1559.6798RGD
Cytogenetic Map15q24UniSTS
D15Got90  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21594,318,513 - 94,318,757 (+)MAPPERmRatBN7.2
Rnor_6.015102,452,123 - 102,452,366NCBIRnor6.0
Rnor_5.015105,894,910 - 105,895,153UniSTSRnor5.0
RGSC_v3.415102,051,784 - 102,052,028RGDRGSC3.4
RGSC_v3.415102,051,785 - 102,052,028UniSTSRGSC3.4
Celera1593,177,269 - 93,177,506UniSTS
RGSC_v3.115102,067,565 - 102,067,808RGD
RH 3.4 Map15642.7UniSTS
RH 3.4 Map15642.7RGD
RH 2.0 Map15546.0RGD
Cytogenetic Map15q24UniSTS
D10Chm22  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21594,463,361 - 94,463,582 (+)MAPPERmRatBN7.2
Rnor_6.015102,595,592 - 102,595,812NCBIRnor6.0
Rnor_5.015106,038,379 - 106,038,599UniSTSRnor5.0
RGSC_v3.415102,195,138 - 102,195,358UniSTSRGSC3.4
Celera1593,321,110 - 93,321,330UniSTS
Cytogenetic Map15q24UniSTS
RH128206  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,027,420 - 95,027,625 (+)MAPPERmRatBN7.2
Rnor_6.015103,174,259 - 103,174,463NCBIRnor6.0
Rnor_5.015106,611,192 - 106,611,396UniSTSRnor5.0
RGSC_v3.415102,750,816 - 102,751,020UniSTSRGSC3.4
Celera1593,881,424 - 93,881,628UniSTS
RH 3.4 Map15646.7UniSTS
Cytogenetic Map15q24UniSTS
RH133768  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21598,040,273 - 98,040,459 (+)MAPPERmRatBN7.2
Rnor_6.015106,292,526 - 106,292,711NCBIRnor6.0
Rnor_5.015109,688,425 - 109,688,610UniSTSRnor5.0
RGSC_v3.415106,021,203 - 106,021,388UniSTSRGSC3.4
Celera1596,848,677 - 96,848,862UniSTS
Celera1593,556,470 - 93,556,654UniSTS
RH 3.4 Map15644.7UniSTS
Cytogenetic Map15q24UniSTS
RH144677  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21594,347,429 - 94,347,603 (+)MAPPERmRatBN7.2
Rnor_6.015102,480,606 - 102,480,779NCBIRnor6.0
Rnor_5.015105,923,393 - 105,923,566UniSTSRnor5.0
RGSC_v3.415102,080,259 - 102,080,432UniSTSRGSC3.4
Celera1593,206,173 - 93,206,346UniSTS
RH 3.4 Map15644.1UniSTS
Cytogenetic Map15q24UniSTS
BF399195  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21594,823,825 - 94,824,007 (+)MAPPERmRatBN7.2
Rnor_6.015102,971,315 - 102,971,496NCBIRnor6.0
Rnor_5.015106,410,902 - 106,411,083UniSTSRnor5.0
RGSC_v3.415102,561,547 - 102,561,728UniSTSRGSC3.4
Celera1593,681,172 - 93,681,353UniSTS
RH 3.4 Map15646.7UniSTS
Cytogenetic Map15q24UniSTS
RH135097  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,024,353 - 95,024,572 (+)MAPPERmRatBN7.2
Rnor_6.015103,171,192 - 103,171,410NCBIRnor6.0
Rnor_5.015106,608,125 - 106,608,343UniSTSRnor5.0
RGSC_v3.415102,747,749 - 102,747,967UniSTSRGSC3.4
Celera1593,878,357 - 93,878,575UniSTS
RH 3.4 Map15646.2UniSTS
Cytogenetic Map15q24UniSTS
RH141325  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,024,109 - 95,024,297 (+)MAPPERmRatBN7.2
Rnor_6.015103,170,948 - 103,171,135NCBIRnor6.0
Rnor_5.015106,607,881 - 106,608,068UniSTSRnor5.0
RGSC_v3.415102,747,505 - 102,747,692UniSTSRGSC3.4
Celera1593,878,113 - 93,878,300UniSTS
RH 3.4 Map15647.8UniSTS
Cytogenetic Map15q24UniSTS
BE118647  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21594,349,733 - 94,349,900 (+)MAPPERmRatBN7.2
Rnor_6.015102,482,910 - 102,483,076NCBIRnor6.0
Rnor_5.015105,925,697 - 105,925,863UniSTSRnor5.0
RGSC_v3.415102,082,563 - 102,082,729UniSTSRGSC3.4
Celera1593,208,477 - 93,208,643UniSTS
RH 3.4 Map15642.8UniSTS
Cytogenetic Map15q24UniSTS
GPC6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21594,030,942 - 94,031,057 (+)MAPPERmRatBN7.2
Rnor_6.015102,165,079 - 102,165,193NCBIRnor6.0
Rnor_5.015105,608,848 - 105,608,962UniSTSRnor5.0
RGSC_v3.415101,763,235 - 101,763,349UniSTSRGSC3.4
Celera1592,889,311 - 92,889,425UniSTS
Cytogenetic Map15q24UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
15 12 67 163 91 90 59 27 59 6 302 127 11 144 93 92 31 19 19

Sequence


Ensembl Acc Id: ENSRNOT00000076400   ⟹   ENSRNOP00000068304
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1594,029,884 - 95,024,006 (+)Ensembl
Rnor_6.0 Ensembl15102,164,751 - 103,170,847 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119031   ⟹   ENSRNOP00000086451
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1594,029,884 - 95,024,006 (+)Ensembl
RefSeq Acc Id: NM_001427433   ⟹   NP_001414362
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815100,437,465 - 101,435,038 (+)NCBI
RefSeq Acc Id: XM_003751533   ⟹   XP_003751581
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr815100,437,415 - 101,435,038 (+)NCBI
mRatBN7.21594,030,218 - 95,027,883 (+)NCBI
Rnor_6.015102,164,091 - 103,174,721 (+)NCBI
Rnor_5.015105,607,785 - 106,611,654 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001414362 (Get FASTA)   NCBI Sequence Viewer  
  XP_003751581 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM02516 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000068304
  ENSRNOP00000068304.1
  ENSRNOP00000086451
  ENSRNOP00000086451.1
RefSeq Acc Id: XP_003751581   ⟸   XM_003751533
- Peptide Label: isoform X1
- UniProtKB: A0A8I6A609 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000068304   ⟸   ENSRNOT00000076400
Ensembl Acc Id: ENSRNOP00000086451   ⟸   ENSRNOT00000119031
RefSeq Acc Id: NP_001414362   ⟸   NM_001427433
- Peptide Label: precursor
- UniProtKB: A0A096MJY1 (UniProtKB/TrEMBL),   A6HUF3 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A096MJY1-F1-model_v2 AlphaFold A0A096MJY1 1-555 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593308 AgrOrtholog
BioCyc Gene G2FUF-12472 BioCyc
Ensembl Genes ENSRNOG00000046660 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000062503 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000076400 ENTREZGENE
  ENSRNOT00000076400.2 UniProtKB/TrEMBL
  ENSRNOT00000119031 ENTREZGENE
  ENSRNOT00000119031.1 UniProtKB/TrEMBL
InterPro Glypican UniProtKB/TrEMBL
  Glypican_CS UniProtKB/TrEMBL
KEGG Report rno:691984 UniProtKB/TrEMBL
NCBI Gene 691984 ENTREZGENE
PANTHER PTHR10822 UniProtKB/TrEMBL
  PTHR10822:SF31 UniProtKB/TrEMBL
Pfam Glypican UniProtKB/TrEMBL
PhenoGen Gpc6 PhenoGen
PROSITE GLYPICAN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000046660 RatGTEx
  ENSRNOG00000062503 RatGTEx
UniProt A0A096MJY1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A609 ENTREZGENE, UniProtKB/TrEMBL
  A6HUF3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-10-22 Gpc6  glypican 6  LOC691984  similar to Glypican-6 precursor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691984  similar to Glypican-6 precursor  RGD1563063_predicted  similar to Gpc6 protein (predicted)  Data merged from RGD:1563063 1643240 APPROVED
2006-11-20 LOC691984  similar to Glypican-6 precursor      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1563063_predicted  similar to Gpc6 protein (predicted)  LOC306163  similar to Gpc6 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC306163  similar to Gpc6 protein      Symbol and Name status set to provisional 70820 PROVISIONAL