Ldlr (low density lipoprotein receptor) - Rat Genome Database

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Gene: Ldlr (low density lipoprotein receptor) Heterocephalus glaber
Analyze
Symbol: Ldlr
Name: low density lipoprotein receptor
RGD ID: 18926082
Description: ENCODES a protein that exhibits amyloid-beta binding (ortholog); identical protein binding (ortholog); low-density lipoprotein particle binding (ortholog); INVOLVED IN amyloid-beta clearance (ortholog); amyloid-beta clearance by cellular catabolic process (ortholog); artery morphogenesis (ortholog); PARTICIPATES IN atherosclerosis pathway; ASSOCIATED WITH alpha-mannosidosis (ortholog); Alzheimer's disease (ortholog); amyotrophic lateral sclerosis type 1 (ortholog); FOUND IN apical part of cell (ortholog); basolateral plasma membrane (ortholog); caveola (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: low-density lipoprotein receptor
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,999,169 - 3,021,987 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248282,999,122 - 3,021,893 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
alpha-mannosidosis  (ISO)
Alzheimer's disease  (ISO)
amyotrophic lateral sclerosis type 1  (ISO)
Animal Toxoplasmosis  (ISO)
aortic atherosclerosis  (ISO)
aortic dissection  (ISO)
arteriosclerosis  (ISO)
atherosclerosis  (ISO)
autosomal recessive hypercholesterolemia  (ISO)
Bannayan-Riley-Ruvalcaba syndrome  (ISO)
carotid artery dissection  (ISO)
Carotid Artery Dissection, Internal  (ISO)
carotid artery occlusion  (ISO)
Charcot-Marie-Tooth disease dominant intermediate B  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
coronary artery disease  (ISO)
Coronary Disease  (ISO)
COVID-19  (ISO)
Dyslipidemias  (ISO)
episodic ataxia type 2  (ISO)
Experimental Diabetes Mellitus  (ISO)
familial combined hyperlipidemia  (ISO)
familial hypercholesterolemia  (ISO)
Familial Hypercholesterolemia due to Ligand-Defective Apolipoprotein B  (ISO)
familial hyperlipidemia  (ISO)
glutaric acidemia I  (ISO)
hepatitis C  (ISO)
Hepatomegaly  (ISO)
Hypercholesterolemia  (ISO)
Hyperlipoproteinemia Type II  (ISO)
hyperlipoproteinemia type III  (ISO)
Hyperplasia  (ISO)
Hypertriglyceridemia  (ISO)
kidney disease  (ISO)
liver cirrhosis  (ISO)
metabolic dysfunction and alcohol associated liver disease  (ISO)
metabolic dysfunction-associated steatotic liver disease  (ISO)
Metabolic Syndrome  (ISO)
migraine without aura  (ISO)
obesity  (ISO)
Q fever  (ISO)
Reperfusion Injury  (ISO)
rhabdoid tumor predisposition syndrome 2  (ISO)
Smith-Lemli-Opitz syndrome  (ISO)
steatotic liver disease  (ISO)
Stroke  (ISO)
syndromic X-linked intellectual disability Najm type  (ISO)
systemic lupus erythematosus  (ISO)
xanthomatosis  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
amyloid-beta clearance  (ISO)
amyloid-beta clearance by cellular catabolic process  (ISO)
artery morphogenesis  (ISO)
cellular response to fatty acid  (ISO)
cellular response to low-density lipoprotein particle stimulus  (ISO)
cholesterol homeostasis  (ISO)
cholesterol import  (ISO)
cholesterol metabolic process  (ISO)
cholesterol transport  (ISO)
endocytosis  (IEA,ISO)
establishment of localization in cell  (ISO)
high-density lipoprotein particle clearance  (ISO)
intestinal cholesterol absorption  (ISO)
lipid metabolic process  (ISO)
lipoprotein catabolic process  (ISO)
lipoprotein metabolic process  (ISO)
long-term memory  (ISO)
low-density lipoprotein particle clearance  (ISO)
negative regulation of amyloid fibril formation  (ISO)
negative regulation of astrocyte activation  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of low-density lipoprotein particle clearance  (ISO)
negative regulation of microglial cell activation  (ISO)
negative regulation of protein metabolic process  (ISO)
negative regulation of receptor recycling  (ISO)
phagocytosis  (ISO)
phospholipid transport  (ISO)
plasma lipoprotein particle clearance  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of inflammatory response  (ISO)
positive regulation of lysosomal protein catabolic process  (ISO)
positive regulation of triglyceride biosynthetic process  (ISO)
positive regulation of triglyceride catabolic process  (ISO)
receptor-mediated endocytosis  (IEA)
receptor-mediated endocytosis involved in cholesterol transport  (ISO)
regulation of cholesterol metabolic process  (ISO)
regulation of phosphatidylcholine catabolic process  (ISO)
regulation of protein metabolic process  (ISO)
response to caloric restriction  (ISO)
response to estradiol  (ISO)
response to estrogen  (ISO)
response to ethanol  (ISO)
response to glucagon  (ISO)
response to hormone  (ISO)
response to hypoxia  (ISO)
retinoid metabolic process  (ISO)
transcytosis  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Ldlr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,999,169 - 3,021,987 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248282,999,122 - 3,021,893 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
LDLR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381911,089,463 - 11,133,820 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1911,089,418 - 11,133,820 (+)EnsemblGRCh38hg38GRCh38
GRCh371911,200,139 - 11,244,496 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361911,061,132 - 11,105,490 (+)NCBINCBI36Build 36hg18NCBI36
Build 341911,061,131 - 11,105,490NCBI
Celera1911,094,887 - 11,139,322 (+)NCBICelera
Cytogenetic Map19p13.2NCBI
HuRef1910,777,128 - 10,820,847 (+)NCBIHuRef
CHM1_11911,201,264 - 11,245,760 (+)NCBICHM1_1
T2T-CHM13v2.01911,216,460 - 11,260,830 (+)NCBIT2T-CHM13v2.0
Ldlr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,634,872 - 21,661,215 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl921,634,779 - 21,661,215 (+)EnsemblGRCm39 Ensembl
GRCm38921,723,576 - 21,749,919 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl921,723,483 - 21,749,919 (+)EnsemblGRCm38mm10GRCm38
MGSCv37921,528,038 - 21,554,363 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36921,474,180 - 21,498,819 (+)NCBIMGSCv36mm8
Celera918,993,187 - 19,019,513 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.87NCBI
Ldlr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8828,546,191 - 28,569,075 (+)NCBIGRCr8
mRatBN7.2820,270,020 - 20,292,981 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl820,270,041 - 20,294,580 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx824,305,445 - 24,328,327 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0822,600,993 - 22,623,875 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0820,499,706 - 20,522,587 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0822,750,425 - 22,773,305 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl822,750,336 - 22,774,903 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0822,804,325 - 22,827,199 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4820,824,040 - 20,846,920 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1820,824,039 - 20,846,920 (+)NCBI
Celera821,660,761 - 21,683,616 (+)NCBICelera
RH 3.4 Map8178.16RGD
RH 3.4 Map8178.16RGD
Cytogenetic Map8q13NCBI
Ldlr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554952,114,434 - 2,138,056 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554952,114,702 - 2,135,584 (+)NCBIChiLan1.0ChiLan1.0
LDLR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22016,006,932 - 16,050,438 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11915,005,600 - 15,049,123 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01910,640,225 - 10,683,728 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11911,357,311 - 11,402,736 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1911,357,311 - 11,396,791 (+)Ensemblpanpan1.1panPan2
LDLR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,115,175 - 50,152,443 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,048,736 - 50,152,355 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2049,988,705 - 50,026,032 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02050,636,154 - 50,673,474 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2050,636,157 - 50,673,423 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12049,846,492 - 49,883,796 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02050,273,144 - 50,310,479 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02050,515,859 - 50,553,174 (-)NCBIUU_Cfam_GSD_1.0
Ldlr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,054,161 - 209,095,215 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366591,259,369 - 1,302,294 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366591,259,405 - 1,300,545 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LDLR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,828,332 - 69,864,827 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1269,828,348 - 69,864,823 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2270,193,426 - 70,206,818 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LDLR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1610,062,204 - 10,091,780 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl610,062,790 - 10,091,377 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660749,815,946 - 9,867,321 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000020514   ⟹   ENSHGLP00000020312
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248282,999,169 - 3,021,987 (+)Ensembl
RefSeq Acc Id: XM_004865556   ⟹   XP_004865613
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248282,999,122 - 3,021,893 (+)NCBI
RefSeq Acc Id: XM_021244873   ⟹   XP_021100532
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248282,999,467 - 3,021,893 (+)NCBI
RefSeq Acc Id: XM_021244874   ⟹   XP_021100533
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248282,999,467 - 3,021,893 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004865613 (Get FASTA)   NCBI Sequence Viewer  
  XP_021100532 (Get FASTA)   NCBI Sequence Viewer  
  XP_021100533 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000020312
GenBank Protein JAN98357 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_004865613   ⟸   XM_004865556
- Peptide Label: isoform X3
- UniProtKB: A0AAX6Q561 (UniProtKB/TrEMBL),   A0A0N8ET61 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021100532   ⟸   XM_021244873
- Peptide Label: isoform X1
- UniProtKB: A0AAX6RV70 (UniProtKB/TrEMBL),   A0A0N8ET61 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021100533   ⟸   XM_021244874
- Peptide Label: isoform X2
- UniProtKB: A0AAX6RUU3 (UniProtKB/TrEMBL),   A0A0N8ET61 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000020312   ⟸   ENSHGLT00000020514


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000014530 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000020514 ENTREZGENE
Gene3D-CATH 2.120.10.30 UniProtKB/TrEMBL
  4.10.400.10 UniProtKB/TrEMBL
  EGF-type module UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Growth_fac_rcpt_cys_sf UniProtKB/TrEMBL
  LDL_receptor-like_sf UniProtKB/TrEMBL
  LDLR UniProtKB/TrEMBL
  LDLR_class-A_CS UniProtKB/TrEMBL
  LDLR_classB_rpt UniProtKB/TrEMBL
  LDrepeatLR_classA_rpt UniProtKB/TrEMBL
  NOTCH1_EGF-like UniProtKB/TrEMBL
NCBI Gene Ldlr ENTREZGENE
PANTHER LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED UniProtKB/TrEMBL
  VERY LOW-DENSITY LIPOPROTEIN RECEPTOR UniProtKB/TrEMBL
Pfam EGF_CA UniProtKB/TrEMBL
  FXa_inhibition UniProtKB/TrEMBL
  Ldl_recept_a UniProtKB/TrEMBL
  Ldl_recept_b UniProtKB/TrEMBL
PRINTS LDLRECEPTOR UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LDLRA_1 UniProtKB/TrEMBL
  LDLRA_2 UniProtKB/TrEMBL
  LDLRB UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  LDLa UniProtKB/TrEMBL
  SM00135 UniProtKB/TrEMBL
Superfamily-SCOP SSF57184 UniProtKB/TrEMBL
  SSF57424 UniProtKB/TrEMBL
  YWTD domain UniProtKB/TrEMBL
UniProt A0A0N8ET61 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6Q561 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6RUU3 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6RV70 ENTREZGENE, UniProtKB/TrEMBL