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    Ldlr low density lipoprotein receptor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300438, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ldlrprovided by RGD
    Official Full Name
    low density lipoprotein receptorprovided by RGD
    Primary source
    RGD:2998
    See related
    EnsemblRapid:ENSRNOG00000009946 AllianceGenome:RGD:2998
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    LDLRA
    Summary
    Enables low-density lipoprotein particle receptor activity. Involved in several processes, including cholesterol homeostasis; positive regulation of triglyceride catabolic process; and response to glucagon. Located in caveola and recycling endosome membrane. Used to study aortic atherosclerosis; atherosclerosis; familial hyperlipidemia; steatotic liver disease; and xanthomatosis. Human ortholog(s) of this gene implicated in Alzheimer's disease; arteriosclerosis; familial hypercholesterolemia; hepatitis C; and migraine without aura. Orthologous to human LDLR (low density lipoprotein receptor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 367.4), Adrenal (RPKM 281.3) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Ldlr in Genome Data Viewer
    Location:
    8q13
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (28546191..28569075)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (20270020..20292981)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (22750425..22773305)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene Yip1 domain family, member 2 Neighboring gene translocase of inner mitochondrial membrane 29 Neighboring gene SWI/SNF related BAF chromatin remodeling complex subunit ATPase 4 Neighboring gene uncharacterized LOC134480145 Neighboring gene SPC24 component of NDC80 kinetochore complex Neighboring gene KN motif and ankyrin repeat domains 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables amyloid-beta binding  
    enables amyloid-beta binding  
    enables calcium ion binding  
    enables identical protein binding  
    enables identical protein binding  
    enables lipoprotein particle binding  
    enables low-density lipoprotein particle binding  
    enables low-density lipoprotein particle binding  
    enables low-density lipoprotein particle receptor activity  
    enables low-density lipoprotein particle receptor activity PubMed 
    enables low-density lipoprotein particle receptor activity  
    enables low-density lipoprotein particle receptor activity  
    enables low-density lipoprotein particle receptor activity PubMed 
    enables molecular adaptor activity  
    enables protease binding  
    enables protease binding  
    enables protein binding PubMed 
    enables very-low-density lipoprotein particle receptor activity  
    enables very-low-density lipoprotein particle receptor activity  
    Items 1 - 25 of 82
    Process Evidence Code Pubs
    involved_in amyloid-beta clearance  
    involved_in amyloid-beta clearance by cellular catabolic process  
    involved_in amyloid-beta clearance by cellular catabolic process  
    involved_in artery morphogenesis  
    involved_in artery morphogenesis  
    involved_in cellular response to fatty acid  
    involved_in cellular response to fatty acid  
    involved_in cellular response to low-density lipoprotein particle stimulus  
    involved_in cellular response to low-density lipoprotein particle stimulus  
    involved_in cholesterol homeostasis  
    involved_in cholesterol homeostasis  
    involved_in cholesterol homeostasis PubMed 
    acts_upstream_of_or_within cholesterol homeostasis  
    involved_in cholesterol homeostasis  
    involved_in cholesterol import  
    involved_in cholesterol import  
    involved_in cholesterol metabolic process  
    acts_upstream_of_or_within cholesterol metabolic process  
    acts_upstream_of_or_within cholesterol transport  
    involved_in cholesterol transport  
    involved_in endocytosis  
    involved_in endocytosis PubMed 
    acts_upstream_of_or_within establishment of localization in cell  
    involved_in high-density lipoprotein particle clearance  
    involved_in high-density lipoprotein particle clearance  
    involved_in intestinal cholesterol absorption  
    involved_in intestinal cholesterol absorption  
    acts_upstream_of_or_within lipid metabolic process  
    involved_in lipid transport  
    involved_in lipoprotein catabolic process  
    acts_upstream_of_or_within lipoprotein catabolic process  
    acts_upstream_of_or_within lipoprotein metabolic process  
    involved_in long-term memory  
    involved_in long-term memory  
    involved_in low-density lipoprotein particle clearance  
    acts_upstream_of_or_within low-density lipoprotein particle clearance  
    involved_in low-density lipoprotein particle clearance  
    involved_in negative regulation of amyloid fibril formation  
    involved_in negative regulation of amyloid fibril formation  
    involved_in negative regulation of astrocyte activation  
    involved_in negative regulation of astrocyte activation  
    involved_in negative regulation of gene expression  
    involved_in negative regulation of gene expression  
    involved_in negative regulation of low-density lipoprotein particle clearance  
    involved_in negative regulation of low-density lipoprotein particle clearance  
    involved_in negative regulation of microglial cell activation  
    involved_in negative regulation of microglial cell activation  
    involved_in negative regulation of protein metabolic process  
    involved_in negative regulation of receptor recycling  
    involved_in negative regulation of receptor recycling  
    involved_in phagocytosis  
    involved_in phagocytosis  
    involved_in phospholipid transport  
    involved_in phospholipid transport  
    involved_in plasma lipoprotein particle clearance  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of inflammatory response  
    involved_in positive regulation of inflammatory response  
    involved_in positive regulation of lysosomal protein catabolic process  
    involved_in positive regulation of lysosomal protein catabolic process  
    involved_in positive regulation of triglyceride biosynthetic process  
    involved_in positive regulation of triglyceride biosynthetic process  
    involved_in positive regulation of triglyceride catabolic process PubMed 
    involved_in receptor-mediated endocytosis  
    involved_in receptor-mediated endocytosis involved in cholesterol transport  
    involved_in receptor-mediated endocytosis involved in cholesterol transport  
    involved_in receptor-mediated endocytosis involved in cholesterol transport  
    involved_in regulation of cholesterol metabolic process  
    involved_in regulation of cholesterol metabolic process  
    involved_in regulation of phosphatidylcholine catabolic process  
    involved_in regulation of phosphatidylcholine catabolic process  
    involved_in regulation of protein metabolic process  
    involved_in response to caloric restriction  
    involved_in response to caloric restriction  
    involved_in response to estradiol PubMed 
    involved_in response to estrogen PubMed 
    involved_in response to ethanol PubMed 
    involved_in response to glucagon PubMed 
    involved_in response to hormone PubMed 
    involved_in response to hypoxia PubMed 
    involved_in transcytosis  
    Items 1 - 25 of 82
    Items 1 - 20 of 37
    Component Evidence Code Pubs
    located_in Golgi apparatus  
    located_in Golgi apparatus  
    located_in Golgi apparatus  
    part_of PCSK9-LDLR complex  
    part_of PCSK9-LDLR complex  
    located_in apical part of cell  
    located_in apical part of cell  
    located_in basolateral plasma membrane  
    located_in basolateral plasma membrane  
    located_in caveola PubMed 
    located_in cell surface  
    located_in cell surface  
    located_in clathrin-coated pit  
    located_in clathrin-coated pit  
    is_active_in early endosome  
    located_in early endosome  
    located_in early endosome  
    located_in early endosome  
    located_in endosome  
    located_in external side of plasma membrane  
    located_in external side of plasma membrane  
    located_in late endosome  
    located_in late endosome  
    located_in late endosome  
    part_of low-density lipoprotein particle  
    located_in lysosome  
    located_in lysosome  
    located_in lysosome  
    is_active_in plasma membrane  
    located_in plasma membrane  
    part_of receptor complex  
    part_of receptor complex  
    located_in recycling endosome membrane PubMed 
    located_in somatodendritic compartment  
    located_in somatodendritic compartment  
    located_in sorting endosome  
    located_in sorting endosome  
    Items 1 - 20 of 37

    General protein information

    Preferred Names
    low-density lipoprotein receptor
    Names
    LDL receptor

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_175762.3NP_786938.2  low-density lipoprotein receptor precursor

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A6JNU1, G3V7A5
      Related
      ENSRNOP00000013496.3, ENSRNOT00000013496.5
      Conserved Domains (6) summary
      smart00179
      Location:355389
      EGF_CA; Calcium-binding EGF-like domain
      cd05819
      Location:435469
      NHL; NHL repeat [structural motif]
      cl18310
      Location:435628
      NHL; NHL repeat unit of beta-propeller proteins
      pfam00057
      Location:196232
      Ldl_recept_a; Low-density lipoprotein receptor domain class A
      pfam00058
      Location:529569
      Ldl_recept_b; Low-density lipoprotein receptor repeat class B
      pfam14670
      Location:319353
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      28546191..28569075
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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