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

Gene ID: 25696, updated on 2-May-2024

Summary

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Official Symbol
Vldlrprovided by RGD
Official Full Name
very low density lipoprotein receptorprovided by RGD
Primary source
RGD:3963
See related
Ensembl:ENSRNOG00000027491 AllianceGenome:RGD:3963
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including reelin receptor activity; very-low-density lipoprotein particle binding activity; and very-low-density lipoprotein particle receptor activity. Involved in several processes, including cellular response to glucose starvation; cellular response to interleukin-1; and cellular response to lipopolysaccharide. Located in several cellular components, including apical part of cell; cell surface; and perinuclear region of cytoplasm. Biomarker of focal segmental glomerulosclerosis and nephrotic syndrome. Human ortholog(s) of this gene implicated in Alzheimer's disease; cerebellar ataxia, mental retardation and dysequlibrium syndrome; and dementia. Orthologous to human VLDLR (very low density lipoprotein receptor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 264.9), Muscle (RPKM 252.4) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Vldlr in Genome Data Viewer
Location:
1q52
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (234239769..234272150)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (224813539..224850400)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (245236819..245273688)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102557104 Neighboring gene uncharacterized LOC120100010 Neighboring gene uncharacterized LOC134485215 Neighboring gene potassium voltage-gated channel modifier subfamily V member 2 Neighboring gene uncharacterized LOC102555808 Neighboring gene pumilio RNA-binding family member 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Genomic response of hypoxic Müller cells involves the very low density lipoprotein receptor as part of an angiogenic network. Loewen N, et al. Exp Eye Res, 2009 May. PMID 19233325
  2. Dietary single cell protein reduces fatty liver in obese Zucker rats. Gudbrandsen OA, et al. Br J Nutr, 2008 Oct. PMID 18346305
  3. Glucose deprivation accelerates VLDL receptor-mediated TG-rich lipoprotein uptake by AMPK activation in skeletal muscle cells. Zenimaru Y, et al. Biochem Biophys Res Commun, 2008 Apr 11. PMID 18262491
  4. Role of the macrophage very-low-density lipoprotein receptor in atherosclerotic lesion development. Eck MV, et al. Atherosclerosis, 2005 Dec. PMID 15979629
  5. Remnant lipoprotein particles are taken up into myocardium through VLDL receptor--a possible mechanism for cardiac fatty acid metabolism. Kamataki A, et al. Biochem Biophys Res Commun, 2002 May 10. PMID 12051760

See all (42) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. neuronal stress differentially regulates lipoprotein receptor expression in neurons, with VLDLR upregulation as a common element as a modulator of neuronal Wnt signaling
    Title: Stress-induced upregulation of VLDL receptor alters Wnt-signaling in neurons.
  2. VLDLR requires RasGRF1/CaMKII to alter dendritic spine formation.
    Title: Very low density lipoprotein receptor regulates dendritic spine formation in a RasGRF1/CaMKII dependent manner.
  3. Data indicate that down-regulation of Mylip/Idol using shRNAs abrogated the decrease in VLDLRs induced by Reelin.
    Title: Reciprocal regulation of very low density lipoprotein receptors (VLDLRs) in neurons by brain-derived neurotrophic factor (BDNF) and Reelin: involvement of the E3 ligase Mylip/Idol.
  4. our data suggest that FE65 serves as a link between VLDLR and APP
    Title: FE65 as a link between VLDLR and APP to regulate their trafficking and processing.
  5. The present results suggest that very low density lipoprotein receptor was affected by a number of different psychotropic medications commonly used to treat schizophrenia, bipolar disorder, major depression, and autism.
    Title: Chronic psychotropic drug treatment causes differential expression of Reelin signaling system in frontal cortex of rats.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables apolipoprotein binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables apolipoprotein binding IEA
Inferred from Electronic Annotation
more info
  
enables apolipoprotein binding ISO
Inferred from Sequence Orthology
more info
  
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables calcium-dependent protein binding IEA
Inferred from Electronic Annotation
more info
  
enables calcium-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
enables cargo receptor activity ISO
Inferred from Sequence Orthology
more info
  
enables protein tyrosine kinase activator activity TAS
Traceable Author Statement
more info
 PubMed 
enables reelin receptor activity IEA
Inferred from Electronic Annotation
more info
  
enables reelin receptor activity ISO
Inferred from Sequence Orthology
more info
  
enables very-low-density lipoprotein particle binding IEA
Inferred from Electronic Annotation
more info
  
enables very-low-density lipoprotein particle binding ISO
Inferred from Sequence Orthology
more info
  
enables very-low-density lipoprotein particle receptor activity IEA
Inferred from Electronic Annotation
more info
  
enables very-low-density lipoprotein particle receptor activity ISO
Inferred from Sequence Orthology
more info
  
enables very-low-density lipoprotein particle receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in cell surface receptor signaling pathway TAS
Traceable Author Statement
more info
 PubMed 
involved_in cellular response to glucose starvation IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cellular response to hypoxia IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in cellular response to insulin stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cellular response to interleukin-1 IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cellular response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cerebral cortex development IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in cholesterol metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in dendrite morphogenesis IEA
Inferred from Electronic Annotation
more info
  
involved_in dendrite morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in endocytosis IEA
Inferred from Electronic Annotation
more info
  
involved_in glycoprotein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in glycoprotein transport ISO
Inferred from Sequence Orthology
more info
  
involved_in heart development IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in lipid transport IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of dendrite development IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of dendrite development ISO
Inferred from Sequence Orthology
more info
  
involved_in receptor-mediated endocytosis IEA
Inferred from Electronic Annotation
more info
  
involved_in receptor-mediated endocytosis ISO
Inferred from Sequence Orthology
more info
  
involved_in reelin-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in reelin-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synapse assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in response to hormone IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to hypoxia IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to nutrient IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to xenobiotic stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in ventral spinal cord development IEA
Inferred from Electronic Annotation
more info
  
involved_in ventral spinal cord development ISO
Inferred from Sequence Orthology
more info
  
involved_in very-low-density lipoprotein particle clearance IEA
Inferred from Electronic Annotation
more info
  
involved_in very-low-density lipoprotein particle clearance ISO
Inferred from Sequence Orthology
more info
  
involved_in very-low-density lipoprotein particle clearance ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in apical part of cell IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
located_in clathrin-coated pit IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular space IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of receptor complex IEA
Inferred from Electronic Annotation
more info
  
part_of receptor complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in synapse ISO
Inferred from Sequence Orthology
more info
  
part_of very-low-density lipoprotein particle IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
very low-density lipoprotein receptor
Names
VLDL receptor
VLDL-R

NCBI Reference Sequences (RefSeq)

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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_013155.2 → NP_037287.2  very low-density lipoprotein receptor precursor

    See identical proteins and their annotated locations for NP_037287.2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/Swiss-Prot
    P98166
    UniProtKB/TrEMBL
    F1LPV2
    Related
    ENSRNOP00000036229.2, ENSRNOT00000035814.4
    Conserved Domains (7) summary
    smart00192
    Location:71 → 103
    LDLa; Low-density lipoprotein receptor domain class A
    smart00135
    Location:508 → 547
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:396 → 426
    EGF_CA; Calcium-binding EGF-like domain
    cd00112
    Location:33 → 67
    LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...
    pfam00057
    Location:237 → 273
    Ldl_recept_a; Low-density lipoprotein receptor domain class A
    pfam00058
    Location:568 → 608
    Ldl_recept_b; Low-density lipoprotein receptor repeat class B
    pfam14670
    Location:360 → 394
    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_086019.1 Reference GRCr8

    Range
    234239769..234272150
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231197.4 → XP_006231259.1  very low-density lipoprotein receptor isoform X1

    See identical proteins and their annotated locations for XP_006231259.1

    UniProtKB/Swiss-Prot
    P98166
    UniProtKB/TrEMBL
    F1LPV2
    Conserved Domains (7) summary
    smart00192
    Location:71 → 103
    LDLa; Low-density lipoprotein receptor domain class A
    smart00135
    Location:508 → 547
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:396 → 426
    EGF_CA; Calcium-binding EGF-like domain
    cd00112
    Location:33 → 67
    LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...
    pfam00057
    Location:237 → 273
    Ldl_recept_a; Low-density lipoprotein receptor domain class A
    pfam00058
    Location:568 → 608
    Ldl_recept_b; Low-density lipoprotein receptor repeat class B
    pfam14670
    Location:360 → 394
    FXa_inhibition; Coagulation Factor Xa inhibitory site

  2. XM_063282143.1 → XP_063138213.1  very low-density lipoprotein receptor isoform X2

  3. XM_039102103.2 → XP_038958031.1  very low-density lipoprotein receptor isoform X1

    UniProtKB/Swiss-Prot
    P98166
    UniProtKB/TrEMBL
    F1LPV2
    Conserved Domains (7) summary
    smart00192
    Location:71 → 103
    LDLa; Low-density lipoprotein receptor domain class A
    smart00135
    Location:508 → 547
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:396 → 426
    EGF_CA; Calcium-binding EGF-like domain
    cd00112
    Location:33 → 67
    LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...
    pfam00057
    Location:237 → 273
    Ldl_recept_a; Low-density lipoprotein receptor domain class A
    pfam00058
    Location:568 → 608
    Ldl_recept_b; Low-density lipoprotein receptor repeat class B
    pfam14670
    Location:360 → 394
    FXa_inhibition; Coagulation Factor Xa inhibitory site

  4. XM_063282122.1 → XP_063138192.1  very low-density lipoprotein receptor isoform X1

    UniProtKB/TrEMBL
    F1LPV2

  5. XM_063282154.1 → XP_063138224.1  very low-density lipoprotein receptor isoform X2

  6. XM_006231198.5 → XP_006231260.1  very low-density lipoprotein receptor isoform X1

    See identical proteins and their annotated locations for XP_006231260.1

    UniProtKB/Swiss-Prot
    P98166
    UniProtKB/TrEMBL
    F1LPV2
    Conserved Domains (7) summary
    smart00192
    Location:71 → 103
    LDLa; Low-density lipoprotein receptor domain class A
    smart00135
    Location:508 → 547
    LY; Low-density lipoprotein-receptor YWTD domain
    smart00179
    Location:396 → 426
    EGF_CA; Calcium-binding EGF-like domain
    cd00112
    Location:33 → 67
    LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...
    pfam00057
    Location:237 → 273
    Ldl_recept_a; Low-density lipoprotein receptor domain class A
    pfam00058
    Location:568 → 608
    Ldl_recept_b; Low-density lipoprotein receptor repeat class B
    pfam14670
    Location:360 → 394
    FXa_inhibition; Coagulation Factor Xa inhibitory site

  7. XM_017588829.3 → XP_017444318.1  very low-density lipoprotein receptor isoform X3

    UniProtKB/Swiss-Prot
    P98166

  8. XM_017588830.3 → XP_017444319.1  very low-density lipoprotein receptor isoform X4

    UniProtKB/Swiss-Prot
    P98166
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P98166.1 GenPept UniProtKB/Swiss-Prot:P98166

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