LDLR (low density lipoprotein receptor) - Rat Genome Database
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Gene: LDLR (low density lipoprotein receptor) Sus scrofa
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Symbol: LDLR
Name: low density lipoprotein receptor
RGD ID: 13943666
Description: ENCODES a protein that exhibits amyloid-beta binding (ortholog); identical protein binding (ortholog); low-density lipoprotein particle binding (ortholog); INVOLVED IN transcytosis; aging (ortholog); amyloid-beta clearance (ortholog); PARTICIPATES IN atherosclerosis pathway; ASSOCIATED WITH Alcoholic Fatty Liver (ortholog); amyotrophic lateral sclerosis type 1 (ortholog); Animal Toxoplasmosis (ortholog); FOUND IN apical part of cell (ortholog); basolateral plasma membrane (ortholog); caveola (ortholog); INTERACTS WITH ezetimibe; simvastatin
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LDL receptor; low-density lipoprotein receptor
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,828,332 - 69,864,823 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1269,828,348 - 69,864,823 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2270,193,426 - 70,206,818 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
ezetimibe  (EXP)
simvastatin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:8344216   PMID:9556295   PMID:10064736   PMID:14681463   PMID:15140193   PMID:16303770   PMID:19544207   PMID:24954195  


Genomics

Comparative Map Data
LDLR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,828,332 - 69,864,823 (+)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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1911,089,362 - 11,133,816 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1911,089,462 - 11,133,820 (+)EnsemblGRCh38hg38GRCh38
GRCh381911,089,432 - 11,133,820 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371911,200,139 - 11,244,496 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361911,061,132 - 11,105,490 (+)NCBINCBI36hg18NCBI36
Build 341911,061,131 - 11,105,490NCBI
Celera1911,094,887 - 11,139,322 (+)NCBI
Cytogenetic Map19p13.2NCBI
HuRef1910,777,128 - 10,820,847 (+)NCBIHuRef
CHM1_11911,201,264 - 11,245,760 (+)NCBICHM1_1
Ldlr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,634,872 - 21,661,215 (+)NCBIGRCm39mm39
GRCm39 Ensembl921,634,779 - 21,661,215 (+)Ensembl
GRCm38921,723,576 - 21,749,919 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl921,723,483 - 21,749,919 (+)EnsemblGRCm38mm10GRCm38
MGSCv37921,528,038 - 21,554,363 (+)NCBIGRCm37mm9NCBIm37
MGSCv36921,474,180 - 21,498,819 (+)NCBImm8
Celera918,993,187 - 19,019,513 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.87NCBI
Ldlr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2820,270,020 - 20,292,981 (+)NCBI
Rnor_6.0 Ensembl822,750,336 - 22,774,903 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0822,750,425 - 22,773,305 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0822,804,325 - 22,827,199 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4820,824,040 - 20,846,920 (+)NCBIRGSC3.4rn4RGSC3.4
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
PanPan1.11911,357,311 - 11,402,736 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1911,357,311 - 11,396,791 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01910,640,225 - 10,683,728 (+)NCBIMhudiblu_PPA_v0panPan3
LDLR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2050,048,736 - 50,152,355 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12050,115,175 - 50,152,443 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ldlr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366591,259,405 - 1,300,545 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LDLR
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1610,062,204 - 10,091,780 (+)NCBI
ChlSab1.1 Ensembl610,062,790 - 10,091,377 (+)Ensembl
Ldlr
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248282,999,122 - 3,021,893 (+)NCBI


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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 7 1 4 4 1 3
Low 3 3 3 1 2 19 2 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001206354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021080444 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021080449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021080452 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021080457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AEMK02000012 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF022657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF065990 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF067952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF118147 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK235468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK236400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK348654 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK395849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FP102365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FS668646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GFLN01044454 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KF717533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S64272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSSCT00000029210   ⟹   ENSSSCP00000021308
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,828,332 - 69,864,819 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000033970   ⟹   ENSSSCP00000030589
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,828,383 - 69,864,812 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000068362   ⟹   ENSSSCP00000071214
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,840,686 - 69,864,818 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000069615   ⟹   ENSSSCP00000070721
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,833,839 - 69,864,820 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000070645   ⟹   ENSSSCP00000070219
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,834,083 - 69,864,820 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000081506   ⟹   ENSSSCP00000060758
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,829,528 - 69,864,819 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000091324   ⟹   ENSSSCP00000059974
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl269,831,308 - 69,864,823 (+)Ensembl
RefSeq Acc Id: NM_001206354   ⟹   NP_001193283
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1269,828,383 - 69,863,876 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021080444   ⟹   XP_020936103
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1269,836,634 - 69,864,823 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021080449   ⟹   XP_020936108
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1269,836,637 - 69,864,823 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021080452   ⟹   XP_020936111
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1269,828,348 - 69,864,823 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021080457   ⟹   XP_020936116
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1269,835,066 - 69,864,823 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_020936111   ⟸   XM_021080452
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: NP_001193283   ⟸   NM_001206354
- Peptide Label: precursor
- UniProtKB: Q28832 (UniProtKB/Swiss-Prot),   W0G5E7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020936116   ⟸   XM_021080457
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_020936103   ⟸   XM_021080444
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020936108   ⟸   XM_021080449
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSSSCP00000071214   ⟸   ENSSSCT00000068362
RefSeq Acc Id: ENSSSCP00000021308   ⟸   ENSSSCT00000029210
RefSeq Acc Id: ENSSSCP00000070721   ⟸   ENSSSCT00000069615
RefSeq Acc Id: ENSSSCP00000070219   ⟸   ENSSSCT00000070645
RefSeq Acc Id: ENSSSCP00000059974   ⟸   ENSSSCT00000091324
RefSeq Acc Id: ENSSSCP00000060758   ⟸   ENSSSCT00000081506
RefSeq Acc Id: ENSSSCP00000030589   ⟸   ENSSSCT00000033970
Protein Domains
EGF-like   EGF_CA   LDL-receptor class A


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000028512 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070024677 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000021308 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000030589 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000059974 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000060758 UniProtKB/TrEMBL
  ENSSSCP00000070219 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000070721 UniProtKB/TrEMBL
  ENSSSCP00000071214 UniProtKB/TrEMBL
  ENSSSCP00070041856 UniProtKB/TrEMBL
  ENSSSCP00070041860 UniProtKB/TrEMBL
  ENSSSCP00070041866 UniProtKB/TrEMBL
  ENSSSCP00070041872 UniProtKB/TrEMBL
  ENSSSCP00070041874 UniProtKB/TrEMBL
  ENSSSCP00070041875 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000029210 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000033970 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000068362 UniProtKB/TrEMBL
  ENSSSCT00000069615 UniProtKB/TrEMBL
  ENSSSCT00000070645 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000081506 UniProtKB/TrEMBL
  ENSSSCT00000091324 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00070049559 UniProtKB/TrEMBL
  ENSSSCT00070049564 UniProtKB/TrEMBL
  ENSSSCT00070049575 UniProtKB/TrEMBL
  ENSSSCT00070049584 UniProtKB/TrEMBL
  ENSSSCT00070049586 UniProtKB/TrEMBL
  ENSSSCT00070049589 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  4.10.400.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_Ca-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Growth_fac_rcpt_cys_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDL_receptor-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDLR_class-A_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDLR_classB_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDrepeatLR_classA_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report ssc:396801 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene LDLR ENTREZGENE
Pfam EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ldl_recept_a UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ldl_recept_b UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS LDLRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDLRA_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDLRA_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDLRB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART EGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_CA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LDLa UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00135 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57184 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57424 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A4X1VEW9_PIG UniProtKB/TrEMBL
  A0A4X1VEX7_PIG UniProtKB/TrEMBL
  A0A4X1VIY7_PIG UniProtKB/TrEMBL
  A0A4X1VIZ9_PIG UniProtKB/TrEMBL
  A0A4X1VK98_PIG UniProtKB/TrEMBL
  A0A4X1VLQ0_PIG UniProtKB/TrEMBL
  A0A5G2Q7C7_PIG UniProtKB/TrEMBL
  A0A5G2QFD9_PIG UniProtKB/TrEMBL
  A0A5G2R284_PIG UniProtKB/TrEMBL
  A0A5G2RGB0_PIG UniProtKB/TrEMBL
  A0A5G2RHC2_PIG UniProtKB/TrEMBL
  I3LB89_PIG UniProtKB/TrEMBL
  K7GRR0_PIG UniProtKB/TrEMBL
  LDLR_PIG UniProtKB/Swiss-Prot, ENTREZGENE
  W0G5E7 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary O62817 UniProtKB/Swiss-Prot
  O77619 UniProtKB/Swiss-Prot
  Q9TV95 UniProtKB/Swiss-Prot
VGNC ID VGNC:89671 ENTREZGENE