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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24167,269,856 - 167,400,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4167,270,353 - 167,400,497 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4173,563,275 - 173,693,775 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04169,346,348 - 169,476,845 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04167,971,888 - 168,102,381 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04168,194,054 - 168,323,962 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4168,194,927 - 168,323,751 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04232,475,530 - 232,606,101 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44171,337,114 - 171,444,932 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14171,582,253 - 171,717,580 (-)NCBI
Celera4155,870,415 - 155,972,673 (-)NCBICelera
Cytogenetic Map4q43NCBI
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)
1,4-phenylenediamine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
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)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chloroprene  (EXP)
clofibric acid  (EXP)
curcumin  (EXP)
cyclosporin A  (ISO)
dibutyl phthalate  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
ethanol  (ISO)
ethosuximide  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
gingerol  (ISO)
glyphosate  (ISO)
hydrogen peroxide  (ISO)
hydroquinone O-beta-D-glucopyranoside  (ISO)
kojic acid  (ISO)
lithium 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 morphogenesis  (ISO)
bone remodeling  (ISO)
branching involved in mammary gland duct morphogenesis  (ISO)
canonical Wnt signaling pathway  (IBA,IMP,ISO)
canonical Wnt signaling pathway involved in cardiac neural crest cell differentiation involved in heart development  (ISO)
cell migration involved in gastrulation  (ISO)
cell-cell adhesion  (IMP)
cellular response to cholesterol  (ISO)
cerebellum morphogenesis  (ISO)
cerebral cortex cell migration  (ISO)
cerebral cortex development  (ISO)
chemical synaptic transmission  (IBA,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)
establishment of blood-brain barrier  (ISO)
establishment of blood-retinal barrier  (ISO)
external genitalia morphogenesis  (ISO)
face morphogenesis  (ISO)
fat cell differentiation  (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)
mesenchymal cell proliferation  (ISO)
mesodermal cell migration  (ISO)
midbrain development  (ISO)
midbrain-hindbrain boundary development  (ISO)
morphogenesis of an epithelium  (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 planar cell polarity pathway involved in cardiac muscle tissue morphogenesis  (ISO)
negative regulation of planar cell polarity pathway involved in cardiac right atrium morphogenesis  (ISO)
negative regulation of planar cell polarity pathway involved in neural tube closure  (ISO)
negative regulation of planar cell polarity pathway involved in outflow tract morphogenesis  (ISO)
negative regulation of planar cell polarity pathway involved in pericardium morphogenesis  (ISO)
negative regulation of planar cell polarity pathway involved in ventricular septum morphogenesis  (ISO)
negative regulation of smooth muscle cell apoptotic process  (ISO)
neural crest cell differentiation  (ISO)
neural crest formation  (ISO)
neural tube closure  (ISO)
neural tube development  (ISO)
Norrin signaling pathway  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
pericardium morphogenesis  (ISO)
planar cell polarity pathway involved in cardiac muscle tissue morphogenesis  (ISO)
planar cell polarity pathway involved in cardiac right atrium morphogenesis  (ISO)
planar cell polarity pathway involved in neural tube closure  (ISO)
planar cell polarity pathway involved in outflow tract morphogenesis  (ISO)
planar cell polarity pathway involved in pericardium morphogenesis  (ISO)
planar cell polarity pathway involved in ventricular septum morphogenesis  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of bone resorption  (ISO)
positive regulation of cell cycle  (ISO)
positive regulation of cytosolic calcium ion concentration  (IMP)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of mesenchymal cell proliferation  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of ossification  (ISO)
positive regulation of stem cell proliferation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
post-anal tail morphogenesis  (ISO)
primitive streak formation  (ISO)
protein localization to plasma membrane  (ISO)
receptor-mediated endocytosis involved in cholesterol transport  (IBA,ISO)
regulation of cell development  (ISO)
regulation of DNA-templated transcription  (IMP)
regulation of epithelial cell proliferation  (ISO)
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)
stem cell proliferation  (ISO)
thalamus development  (ISO)
toxin transport  (IEA)
trachea cartilage morphogenesis  (ISO)
Wnt signaling pathway  (ISO)
Wnt signaling pathway involved in forebrain neuroblast division  (ISO)
Wnt signaling pathway involved in somitogenesis  (IBA,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
mRatBN7.24167,269,856 - 167,400,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4167,270,353 - 167,400,497 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4173,563,275 - 173,693,775 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04169,346,348 - 169,476,845 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04167,971,888 - 168,102,381 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04168,194,054 - 168,323,962 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4168,194,927 - 168,323,751 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04232,475,530 - 232,606,101 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44171,337,114 - 171,444,932 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14171,582,253 - 171,717,580 (-)NCBI
Celera4155,870,415 - 155,972,673 (-)NCBICelera
Cytogenetic Map4q43NCBI
LRP6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381212,116,025 - 12,267,044 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1212,116,025 - 12,267,044 (-)EnsemblGRCh38hg38GRCh38
GRCh371212,268,959 - 12,419,978 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361212,160,226 - 12,311,078 (-)NCBINCBI36Build 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 Ensembl
GRCm386134,446,476 - 134,566,913 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6134,446,476 - 134,566,965 (-)EnsemblGRCm38mm10GRCm38
MGSCv376134,400,434 - 134,516,931 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554139,080,901 - 9,237,644 (-)NCBIChiLan1.0ChiLan1.0
LRP6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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 (-)Ensemblpanpan1.1panPan2
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2712,280,309 - 12,442,407 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02734,310,832 - 34,473,060 (+)NCBIROS_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_1.0
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
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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475225,605,444 - 25,756,573 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrp6
166 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
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)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
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)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat

Markers in Region
D4Rat218  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
RGSC_v3.14171,693,875 - 171,694,377RGD
Celera4155,976,806 - 155,976,928UniSTS
FHH x ACI Map4107.8399RGD
FHH x ACI Map4107.8399UniSTS
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
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
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
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 2 38 43 27 19 27 8 8 74 35 36 11 8
Low 1 5 14 14 14 3 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066575   ⟹   ENSRNOP00000063261
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4168,194,927 - 168,297,373 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082102   ⟹   ENSRNOP00000071445
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4167,270,353 - 167,400,497 (-)Ensembl
Rnor_6.0 Ensembl4168,195,479 - 168,323,751 (-)Ensembl
RefSeq Acc Id: NM_001107892   ⟹   NP_001101362
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
mRatBN7.24167,269,902 - 167,400,364 (-)NCBI
RefSeq Acc Id: XM_039107694   ⟹   XP_038963622
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24167,270,762 - 167,400,155 (-)NCBI
RefSeq Acc Id: XM_039107695   ⟹   XP_038963623
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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_038963622 (Get FASTA)   NCBI Sequence Viewer  
  XP_038963623 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM01658 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071445
  ENSRNOP00000071445.1
Reference Protein Sequences
RefSeq Acc Id: NP_001101362   ⟸   NM_001107892
- Peptide Label: isoform 1
- UniProtKB: A6IMD1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071445   ⟸   ENSRNOT00000082102
RefSeq Acc Id: ENSRNOP00000063261   ⟸   ENSRNOT00000066575
RefSeq Acc Id: XP_038963623   ⟸   XM_039107695
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038963622   ⟸   XM_039107694
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001388749   ⟸   NM_001401820
- Peptide Label: isoform 2 precursor
- UniProtKB: A0A0G2K0H3 (UniProtKB/TrEMBL)
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
  ENSRNOT00000082102.2 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
  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
  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