Lrp6 (LDL receptor related protein 6) - Rat Genome Database

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Gene: Lrp6 (LDL receptor related protein 6) Rattus norvegicus
Analyze
Symbol: Lrp6
Name: LDL receptor related protein 6
RGD ID: 1304749
Description: Predicted to enable several functions, including Wnt receptor activity; Wnt-protein binding activity; and coreceptor activity. Involved in several processes, including canonical Wnt signaling pathway; positive regulation of cytosolic calcium ion concentration; and response to peptide hormone. Located in neuronal cell body. Human ortholog(s) of this gene implicated in tooth agenesis. Orthologous to human LRP6 (LDL receptor related protein 6); PARTICIPATES IN Wnt signaling, canonical pathway; Wnt signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC312781; low density lipoprotein receptor-related protein 6; low-density lipoprotein receptor-related protein 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84168,997,937 - 169,131,716 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4169,000,968 - 169,131,716 (-)EnsemblGRCr8
mRatBN7.24167,269,856 - 167,400,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4167,270,353 - 167,400,497 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4173,563,275 - 173,693,775 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04169,346,348 - 169,476,845 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04167,971,888 - 168,102,381 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04168,194,054 - 168,323,962 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4168,194,927 - 168,323,751 (-)Ensemblrn6Rnor6.0
Rnor_5.04232,475,530 - 232,606,101 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44171,337,114 - 171,444,932 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4155,870,415 - 155,972,673 (-)NCBICelera
RGSC_v3.14171,582,253 - 171,717,580 (-)NCBI
Cytogenetic Map4q43NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-phenylenediamine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-D-galactose  (ISO)
amitrole  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chloroprene  (EXP)
clofibric acid  (EXP)
curcumin  (EXP)
cyclosporin A  (ISO)
dexamethasone  (EXP)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
ethanol  (ISO)
ethosuximide  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
galactose  (ISO)
Gentiopicrin  (ISO)
gingerol  (ISO)
glyphosate  (ISO)
hydrogen peroxide  (ISO)
hydroquinone O-beta-D-glucopyranoside  (ISO)
kojic acid  (ISO)
lithium chloride  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
menadione  (ISO)
mercury dichloride  (ISO)
methapyrilene  (EXP)
methimazole  (EXP)
methotrexate  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
niclosamide  (EXP,ISO)
paclitaxel  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
pluronic P-123  (EXP)
Poloxamer  (EXP)
SB 431542  (ISO)
simvastatin  (EXP)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
tert-butyl hydroperoxide  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
troglitazone  (ISO)
trovafloxacin  (EXP)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anterior/posterior pattern specification  (ISO)
axis elongation  (ISO)
axis elongation involved in somitogenesis  (ISO)
bone remodeling  (ISO)
branching involved in mammary gland duct morphogenesis  (ISO)
canonical Wnt signaling pathway  (IEA,IMP,ISO)
cell migration involved in gastrulation  (ISO)
cell-cell adhesion  (IMP)
cellular response to cholesterol  (IEA,ISO)
cerebellum morphogenesis  (ISO)
cerebral cortex cell migration  (ISO)
cerebral cortex development  (ISO)
chemical synaptic transmission  (IMP)
convergent extension  (ISO)
dopaminergic neuron differentiation  (ISO)
dorsal/ventral axis specification  (ISO)
embryonic camera-type eye morphogenesis  (ISO)
embryonic digit morphogenesis  (ISO)
embryonic forelimb morphogenesis  (ISO)
embryonic hindlimb morphogenesis  (ISO)
embryonic limb morphogenesis  (ISO)
embryonic pattern specification  (ISO)
embryonic retina morphogenesis in camera-type eye  (ISO)
endocytosis  (IEA)
establishment of blood-brain barrier  (ISO)
establishment of blood-retinal barrier  (ISO)
external genitalia morphogenesis  (ISO)
face morphogenesis  (ISO)
forebrain development  (ISO)
forebrain generation of neurons  (ISO)
forebrain radial glial cell differentiation  (ISO)
formation of radial glial scaffolds  (ISO)
gastrulation with mouth forming second  (ISO)
generation of neurons  (ISO)
heart looping  (ISO)
limb morphogenesis  (ISO)
mammary gland duct morphogenesis  (ISO)
mammary placode formation  (ISO)
midbrain development  (ISO)
midbrain-hindbrain boundary development  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of fat cell differentiation  (ISO)
negative regulation of non-canonical Wnt signaling pathway  (ISO)
negative regulation of smooth muscle cell apoptotic process  (IEA,ISO)
nervous system development  (IBA)
neural crest cell differentiation  (IEA,ISO)
neural crest formation  (IEA,ISO)
neural tube closure  (ISO)
neural tube development  (ISO)
Norrin signaling pathway  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
pericardium morphogenesis  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of bone resorption  (ISO)
positive regulation of cell cycle  (IEA,ISO)
positive regulation of cytosolic calcium ion concentration  (IMP)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of mesenchymal cell proliferation  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of ossification  (ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
post-anal tail morphogenesis  (ISO)
primitive streak formation  (ISO)
protein localization to plasma membrane  (IEA,ISO)
receptor-mediated endocytosis involved in cholesterol transport  (ISO)
regulation of cell development  (ISO)
regulation of cell population proliferation  (ISO)
regulation of DNA-templated transcription  (IMP)
response to folic acid  (ISO)
response to peptide hormone  (IEP)
retina morphogenesis in camera-type eye  (ISO)
roof of mouth development  (ISO)
skeletal system morphogenesis  (ISO)
somitogenesis  (ISO)
thalamus development  (ISO)
trachea cartilage morphogenesis  (ISO)
transmembrane transport  (IEA)
Wnt signaling pathway  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Canonical Wnt3a modulates intracellular calcium and enhances excitatory neurotransmission in hippocampal neurons. Avila ME, etal., J Biol Chem. 2010 Jun 11;285(24):18939-47. Epub 2010 Apr 19.
2. Wnt antagonism inhibits hepatic stellate cell activation and liver fibrosis. Cheng JH, etal., Am J Physiol Gastrointest Liver Physiol. 2008 Jan;294(1):G39-49. Epub 2007 Nov 15.
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. Wnt signalling and its impact on development and cancer. Klaus A and Birchmeier W, Nat Rev Cancer. 2008 May;8(5):387-98.
6. Effects of parathyroid hormone on Wnt signaling pathway in bone. Kulkarni NH, etal., J Cell Biochem. 2005 Aug 15;95(6):1178-90.
7. LRP6 mutation in a family with early coronary disease and metabolic risk factors. Mani A, etal., Science. 2007 Mar 2;315(5816):1278-82.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. Comprehensive gene review and curation RGD comprehensive gene curation
16. Expression profile of genes from 12p in testicular germ cell tumors of adolescents and adults associated with i(12p) and amplification at 12p11.2-p12.1. Rodriguez S, etal., Oncogene. 2003 Mar 27;22(12):1880-91.
17. Parathyroid hormone signaling through low-density lipoprotein-related protein 6. Wan M, etal., Genes Dev. 2008 Nov 1;22(21):2968-79.
Additional References at PubMed
PMID:591875   PMID:5893447   PMID:10545599   PMID:11029007   PMID:11029008   PMID:11357136   PMID:11448771   PMID:11742004   PMID:12121999   PMID:12857724   PMID:12897152   PMID:14715945  
PMID:14739301   PMID:15035989   PMID:15064719   PMID:15142971   PMID:15143170   PMID:15271658   PMID:15342729   PMID:15384171   PMID:15469977   PMID:15537447   PMID:15880584   PMID:15908424  
PMID:16126904   PMID:16263759   PMID:16365045   PMID:16543246   PMID:16564009   PMID:16805831   PMID:16890161   PMID:16920270   PMID:17050573   PMID:17239604   PMID:17569865   PMID:17888405  
PMID:18215320   PMID:18256198   PMID:18350154   PMID:18505367   PMID:18505732   PMID:18606138   PMID:18948618   PMID:18985738   PMID:19056682   PMID:19107203   PMID:19503830   PMID:19653321  
PMID:19700620   PMID:19705442   PMID:19795512   PMID:19795519   PMID:19910923   PMID:20059949   PMID:20093106   PMID:20093360   PMID:20093472   PMID:20137080   PMID:20351274   PMID:20359476  
PMID:21935433   PMID:21984209   PMID:22899650   PMID:23481549   PMID:23845000   PMID:25655048   PMID:26919115   PMID:27250245   PMID:29864925   PMID:30070011   PMID:35347917   PMID:36913109  


Genomics

Comparative Map Data
Lrp6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84168,997,937 - 169,131,716 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4169,000,968 - 169,131,716 (-)EnsemblGRCr8
mRatBN7.24167,269,856 - 167,400,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4167,270,353 - 167,400,497 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4173,563,275 - 173,693,775 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04169,346,348 - 169,476,845 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04167,971,888 - 168,102,381 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04168,194,054 - 168,323,962 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4168,194,927 - 168,323,751 (-)Ensemblrn6Rnor6.0
Rnor_5.04232,475,530 - 232,606,101 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44171,337,114 - 171,444,932 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4155,870,415 - 155,972,673 (-)NCBICelera
RGSC_v3.14171,582,253 - 171,717,580 (-)NCBI
Cytogenetic Map4q43NCBI
LRP6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381212,116,025 - 12,267,044 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1212,116,025 - 12,267,185 (-)Ensemblhg38GRCh38
GRCh371212,268,959 - 12,419,978 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361212,160,226 - 12,311,078 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341212,164,957 - 12,311,013NCBI
Celera1217,412,009 - 17,562,835 (-)NCBICelera
Cytogenetic Map12p13.2NCBI
HuRef1212,034,207 - 12,184,947 (-)NCBIHuRef
CHM1_11212,234,005 - 12,384,830 (-)NCBICHM1_1
T2T-CHM13v2.01211,985,150 - 12,136,111 (-)NCBIT2T-CHM13v2.0
Lrp6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396134,423,439 - 134,543,876 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6134,423,439 - 134,543,928 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm386134,446,476 - 134,566,913 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6134,446,476 - 134,566,965 (-)Ensemblmm10GRCm38
MGSCv376134,400,434 - 134,516,931 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv366134,415,902 - 134,532,475 (-)NCBIMGSCv36mm8
Celera6137,380,826 - 137,512,292 (-)NCBICelera
Cytogenetic Map6G1NCBI
cM Map665.37NCBI
Lrp6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554139,080,914 - 9,237,650 (-)Ensembl
ChiLan1.0NW_0049554139,080,901 - 9,237,644 (-)NCBIChiLan1.0ChiLan1.0
LRP6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21017,564,231 - 17,734,520 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11217,560,987 - 17,731,276 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01212,121,411 - 12,288,590 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11212,508,108 - 12,658,074 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1212,508,108 - 12,657,973 (-)EnsemblpanPan2panpan1.1
LRP6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12734,003,334 - 34,166,334 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2734,003,539 - 34,161,437 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2712,280,309 - 12,442,407 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02734,310,832 - 34,473,060 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2734,310,825 - 34,468,519 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12734,203,210 - 34,365,409 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02734,153,217 - 34,315,758 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02712,010,982 - 12,174,011 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lrp6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494595,337,435 - 95,417,648 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365874,978,043 - 5,140,191 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365875,065,200 - 5,143,029 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRP6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl560,149,028 - 60,314,662 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1560,149,041 - 60,318,719 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2563,564,404 - 63,674,461 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LRP6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11112,016,542 - 12,170,496 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1112,021,560 - 12,170,663 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606923,151,738 - 23,306,613 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrp6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475225,605,302 - 25,751,893 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475225,605,444 - 25,756,573 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Lrp6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1614,880,437 - 15,004,551 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lrp6
752 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:451
Count of miRNA genes:235
Interacting mature miRNAs:288
Transcripts:ENSRNOT00000066575
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
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4146370897184426481Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4134095016179095016Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4149763204169799698Rat
6478757Anxrr44Anxiety related response QTL 440.01087locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4146370897184426481Rat
1358364Sradr4Stress Responsive Adrenal Weight QTL 44.92adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)4131384565176384565Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4140059299181024663Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4157292416184426481Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4127263297172263297Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4126334185171334185Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4147299608184426481Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat
6478782Anxrr52Anxiety related response QTL 520.02091locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4124700988169700988Rat
6478720Alc23Alcohol consumption QTL 230.00509drinking behavior trait (VT:0001422)ethanol drink intake rate to body weight ratio (CMO:0001616)4155834926184426481Rat
6478785Anxrr53Anxiety related response QTL 530.01397locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
6478728Anxrr36Anxiety related response QTL 360.01061locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4148121375176967367Rat
6478733Anxrr37Anxiety related response QTL 370.00095locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4140059299184426481Rat
6478737Anxrr38Anxiety related response QTL 380.00159locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4155834926184426481Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4160623982184426481Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4146370897184426481Rat

Markers in Region
D4Rat218  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr84169,109,233 - 169,109,356 (+)Marker Load Pipeline
mRatBN7.24167,377,878 - 167,378,001 (+)MAPPERmRatBN7.2
Rnor_6.04168,301,506 - 168,301,628NCBIRnor6.0
Rnor_5.04232,583,645 - 232,583,767UniSTSRnor5.0
RGSC_v3.44171,449,064 - 171,449,187RGDRGSC3.4
RGSC_v3.44171,449,065 - 171,449,187UniSTSRGSC3.4
Celera4155,976,806 - 155,976,928UniSTS
RGSC_v3.14171,693,875 - 171,694,377RGD
FHH x ACI Map4107.8399UniSTS
FHH x ACI Map4107.8399RGD
Cytogenetic Map4q43UniSTS
RH133552  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24167,269,857 - 167,270,062 (+)MAPPERmRatBN7.2
Rnor_6.04168,194,929 - 168,195,133NCBIRnor6.0
Rnor_5.04232,477,068 - 232,477,272UniSTSRnor5.0
RGSC_v3.44171,337,116 - 171,337,320UniSTSRGSC3.4
Celera4155,870,417 - 155,870,621UniSTS
RH 3.4 Map41016.3UniSTS
Cytogenetic Map4q43UniSTS
RH142471  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr84169,019,220 - 169,019,506 (+)Marker Load Pipeline
mRatBN7.24167,287,858 - 167,288,144 (+)MAPPERmRatBN7.2
Rnor_6.04168,212,930 - 168,213,215NCBIRnor6.0
Rnor_5.04232,495,069 - 232,495,354UniSTSRnor5.0
RGSC_v3.44171,355,117 - 171,355,402UniSTSRGSC3.4
Celera4155,888,418 - 155,888,703UniSTS
RH 3.4 Map41015.4UniSTS
Cytogenetic Map4q43UniSTS
AU047004  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24167,369,840 - 167,370,061 (+)MAPPERmRatBN7.2
Rnor_6.04168,293,468 - 168,293,688NCBIRnor6.0
Rnor_5.04232,575,607 - 232,575,827UniSTSRnor5.0
RGSC_v3.44171,441,027 - 171,441,247UniSTSRGSC3.4
Celera4155,968,768 - 155,968,988UniSTS
Cytogenetic Map4q43UniSTS
AU049275  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr84169,102,744 - 169,102,904 (+)Marker Load Pipeline
mRatBN7.24167,371,389 - 167,371,549 (+)MAPPERmRatBN7.2
Rnor_6.04168,295,017 - 168,295,176NCBIRnor6.0
Rnor_5.04232,577,156 - 232,577,315UniSTSRnor5.0
RGSC_v3.44171,442,576 - 171,442,735UniSTSRGSC3.4
Celera4155,970,317 - 155,970,476UniSTS
Cytogenetic Map4q43UniSTS
Lrp6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24167,373,370 - 167,373,721 (+)MAPPERmRatBN7.2
Rnor_6.04168,296,998 - 168,297,348NCBIRnor6.0
Rnor_5.04232,579,137 - 232,579,487UniSTSRnor5.0
RGSC_v3.44171,444,557 - 171,444,907UniSTSRGSC3.4
Celera4155,972,298 - 155,972,648UniSTS
Cytogenetic Map4q43UniSTS
Lrp6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24167,308,574 - 167,310,036 (+)MAPPERmRatBN7.2
Rnor_6.04168,233,646 - 168,235,107NCBIRnor6.0
Rnor_5.04232,515,785 - 232,517,246UniSTSRnor5.0
RGSC_v3.44171,375,833 - 171,377,294UniSTSRGSC3.4
Celera4155,909,134 - 155,910,595UniSTS
Cytogenetic Map4q43UniSTS


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
16 12 67 162 91 90 59 92 59 6 356 192 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000066575   ⟹   ENSRNOP00000063261
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4168,194,927 - 168,297,373 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000082102   ⟹   ENSRNOP00000071445
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4169,000,968 - 169,131,716 (-)Ensembl
mRatBN7.2 Ensembl4167,270,353 - 167,400,497 (-)Ensembl
Rnor_6.0 Ensembl4168,195,479 - 168,323,751 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000121967   ⟹   ENSRNOP00000105061
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4169,001,218 - 169,105,101 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000128765   ⟹   ENSRNOP00000104896
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4169,004,397 - 169,131,716 (-)Ensembl
RefSeq Acc Id: NM_001107892   ⟹   NP_001101362
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84169,001,218 - 169,105,101 (-)NCBI
mRatBN7.24167,269,856 - 167,373,746 (-)NCBI
Rnor_6.04168,194,927 - 168,297,373 (-)NCBI
Rnor_5.04232,475,530 - 232,606,101 (-)NCBI
RGSC_v3.44171,337,114 - 171,444,932 (-)RGD
Celera4155,870,415 - 155,972,673 (-)RGD
Sequence:
RefSeq Acc Id: NM_001401820   ⟹   NP_001388749
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84169,001,264 - 169,131,716 (-)NCBI
mRatBN7.24167,269,902 - 167,400,364 (-)NCBI
RefSeq Acc Id: XM_039107695   ⟹   XP_038963623
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84168,997,937 - 169,131,506 (-)NCBI
mRatBN7.24167,270,530 - 167,400,147 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001101362 (Get FASTA)   NCBI Sequence Viewer  
  NP_001388749 (Get FASTA)   NCBI Sequence Viewer  
  XP_038963623 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM01658 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071445
  ENSRNOP00000071445.2
  ENSRNOP00000104896.1
  ENSRNOP00000105061
  ENSRNOP00000105061.1
RefSeq Acc Id: NP_001101362   ⟸   NM_001107892
- Peptide Label: isoform 1
- UniProtKB: A6IMD1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071445   ⟸   ENSRNOT00000082102
Ensembl Acc Id: ENSRNOP00000063261   ⟸   ENSRNOT00000066575
RefSeq Acc Id: XP_038963623   ⟸   XM_039107695
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001388749   ⟸   NM_001401820
- Peptide Label: isoform 2 precursor
- UniProtKB: A0A0G2K0H3 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000105061   ⟸   ENSRNOT00000121967
Ensembl Acc Id: ENSRNOP00000104896   ⟸   ENSRNOT00000128765
Protein Domains
EGF-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K0H3-F1-model_v2 AlphaFold A0A0G2K0H3 1-1613 view protein structure

Transcriptome

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

Promoters
RGD ID:13693449
Promoter ID:EPDNEW_R3973
Type:single initiation site
Name:Lrp6_1
Description:LDL receptor related protein 6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3974  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04168,297,283 - 168,297,343EPDNEW
RGD ID:13693461
Promoter ID:EPDNEW_R3974
Type:initiation region
Name:Lrp6_2
Description:LDL receptor related protein 6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R3973  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.04168,323,836 - 168,323,896EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304749 AgrOrtholog
BioCyc Gene G2FUF-42655 BioCyc
Ensembl Genes ENSRNOG00000006338 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000082102 ENTREZGENE
  ENSRNOT00000082102.3 UniProtKB/TrEMBL
  ENSRNOT00000121967 ENTREZGENE
  ENSRNOT00000121967.1 UniProtKB/TrEMBL
  ENSRNOT00000128765.1 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/TrEMBL
  4.10.400.10 UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/TrEMBL
  Cueball_EGF_LRP_Nidogen UniProtKB/TrEMBL
  EG-like_dom UniProtKB/TrEMBL
  LDL_receptor-like_sf UniProtKB/TrEMBL
  LDLR_class-A_CS UniProtKB/TrEMBL
  LDLR_classB_rpt UniProtKB/TrEMBL
  LDrepeatLR_classA_rpt UniProtKB/TrEMBL
  Low_density_Lipo_rcpt-rel_p5/6 UniProtKB/TrEMBL
NCBI Gene 312781 ENTREZGENE
PANTHER LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN 6 UniProtKB/TrEMBL
  VITELLOGENIN RECEPTOR-LIKE PROTEIN-RELATED-RELATED UniProtKB/TrEMBL
Pfam FXa_inhibition UniProtKB/TrEMBL
  Ldl_recept_a UniProtKB/TrEMBL
  Ldl_recept_b UniProtKB/TrEMBL
PhenoGen Lrp6 PhenoGen
PIRSF LDL_recpt-rel_p5/6 UniProtKB/TrEMBL
PRINTS LDLRECEPTOR UniProtKB/TrEMBL
PROSITE LDLRA_1 UniProtKB/TrEMBL
  LDLRA_2 UniProtKB/TrEMBL
  LDLRB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006338 RatGTEx
SMART EGF UniProtKB/TrEMBL
  LDLa UniProtKB/TrEMBL
  SM00135 UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  LDL_rcpt_classA_cys-rich UniProtKB/TrEMBL
  YWTD domain UniProtKB/TrEMBL
UniProt A0A0G2K0H3 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L558_RAT UniProtKB/TrEMBL
  A0ABK0LHW4_RAT UniProtKB/TrEMBL
  A6IMD1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-20 Lrp6  LDL receptor related protein 6  Lrp6  low density lipoprotein receptor-related protein 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Lrp6  low density lipoprotein receptor-related protein 6   Lrp6_predicted  low density lipoprotein receptor-related protein 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Lrp6_predicted  low density lipoprotein receptor-related protein 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED