Gene Gene information from NCBI Gene database.
Entrez ID 7436
Gene name Very low density lipoprotein receptor
Gene symbol VLDLR
Synonyms (NCBI Gene)
CAMRQ1CARMQ1CHRMQ1VLDL-RVLDLRCH
Chromosome 9
Chromosome location 9p24.2
Summary The low density lipoprotein receptor (LDLR) gene family consists of cell surface proteins involved in receptor-mediated endocytosis of specific ligands. This gene encodes a lipoprotein receptor that is a member of the LDLR family and plays important roles
SNPs SNP information provided by dbSNP.
14
SNP ID Visualize variation Clinical significance Consequence
rs80338905 C>A,T Pathogenic Coding sequence variant, non coding transcript variant, synonymous variant, stop gained
rs80338906 T>- Pathogenic Coding sequence variant, non coding transcript variant, frameshift variant
rs80338907 C>A,T Pathogenic Coding sequence variant, non coding transcript variant, synonymous variant, stop gained
rs116306908 A>G Conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, non coding transcript variant, missense variant
rs139671268 G>A Conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, non coding transcript variant, missense variant
miRNA miRNA information provided by mirtarbase database.
365
miRTarBase ID miRNA Experiments Reference
MIRT018291 hsa-miR-335-5p Microarray 18185580
MIRT020261 hsa-miR-130b-3p Sequencing 20371350
MIRT028137 hsa-miR-93-5p Sequencing 20371350
MIRT054784 hsa-miR-135a-5p Luciferase reporter assayqRT-PCRWestern blot 24903309
MIRT713315 hsa-miR-100-3p HITS-CLIP 19536157
Transcription factors Transcription factors information provided by TRRUST V2 database.
3
Transcription factor Regulation Reference
CEBPA Unknown 10064725
HIC1 Repression 24076391
PPARG Activation 19861583
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
46
GO ID Ontology Definition Evidence Reference
GO:0005041 Function Low-density lipoprotein particle receptor activity IEA
GO:0005041 Function Low-density lipoprotein particle receptor activity TAS 10380922
GO:0005509 Function Calcium ion binding IEA
GO:0005515 Function Protein binding IPI 8083232, 10571240, 10571241, 17330141, 17548821, 20223215, 32296183, 33961781
GO:0005615 Component Extracellular space IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
192977 12698 ENSG00000147852
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P98155
Protein name Very low-density lipoprotein receptor (VLDL receptor) (VLDL-R)
Protein function Multifunctional cell surface receptor that binds VLDL and transports it into cells by endocytosis and therefore plays an important role in energy metabolism. Also binds to a wide range of other molecules including Reelin/RELN or apolipoprotein E
PDB 1V9U , 3DPR , 6BYV , 8IHP , 8UA4 , 8UA8 , 8UFB , 8UFC , 8X0K , 8X0L , 8X0M , 8XI4 , 8XI5 , 8YS2 , 8YS4 , 8YVZ , 8YW0 , 8YW1 , 8YW2
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00057 Ldl_recept_a 31 67 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 70 108 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 111 149 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 152 188 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 191 229 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 237 273 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 276 312 Low-density lipoprotein receptor domain class A Repeat
PF00057 Ldl_recept_a 316 355 Low-density lipoprotein receptor domain class A Repeat
PF14670 FXa_inhibition 360 394 Domain
PF07645 EGF_CA 396 434 Calcium-binding EGF domain Domain
PF00058 Ldl_recept_b 481 522 Low-density lipoprotein receptor repeat class B Repeat
PF00058 Ldl_recept_b 525 565 Low-density lipoprotein receptor repeat class B Repeat
PF00058 Ldl_recept_b 568 609 Low-density lipoprotein receptor repeat class B Repeat
PF00058 Ldl_recept_b 612 654 Low-density lipoprotein receptor repeat class B Repeat
PF00058 Ldl_recept_b 655 695 Low-density lipoprotein receptor repeat class B Repeat
PF14670 FXa_inhibition 706 749 Domain
Tissue specificity TISSUE SPECIFICITY: Abundant in heart and skeletal muscle; also ovary and kidney; not in liver.
Sequence
MGTSALWALWLLLALCWAPRESGATGTGRKAKCEPSQFQCTNGRCITLLWKCDGDEDCVD
GSDEKNC
VKKTCAESDFVCNNGQCVPSRWKCDGDPDCEDGSDESPEQCHMRTCRIHEISC
GAHSTQCIPVSWRCDGENDCDSGEDEENC
GNITCSPDEFTCSSGRCISRNFVCNGQDDCS
DGSDELDC
APPTCGAHEFQCSTSSCIPISWVCDDDADCSDQSDESLEQCGRQPVIHTKCP
ASEIQCGSGECIHKKWRCDGDPDCKDGSDEVNC
PSRTCRPDQFECEDGSCIHGSRQCNGI
RDCVDGSDEVNC
KNVNQCLGPGKFKCRSGECIDISKVCNQEQDCRDWSDEPLKECHINEC
LVNNGGCSHICKDLVIGYECDCAAGFELIDRKTC
GDIDECQNPGICSQICINLKGGYKCE
CSRGYQMDLATGVC
KAVGKEPSLIFTNRRDIRKIGLERKEYIQLVEQLRNTVALDADIAA
QKLFWADLSQKAIFSASIDDKVGRHVKMIDNVYNPAAIAVDWVYKTIYWTDAASKTISVA
TLDGTKRKFLFNSDLREPASIAVDP
LSGFVYWSDWGEPAKIEKAGMNGFDRRPLVTADIQ
WPNGITLDL
IKSRLYWLDSKLHMLSSVDLNGQDRRIVLKSLEFLAHPLALTIFEDRVYWI
DGENEAVYGANKFTGSELATLVNNLNDAQDIIVYH
ELVQPSGKNWCEEDMENGGCEYLCL
PAPQINDHSPKYTCSCPSGYNVEENGRDC
QSTATTVTYSETKDTNTTEISATSGLVPGGI
NVTTAVSEVSVPPKGTSAAWAILPLLLLVMAAVGGYLMWRNWQHKNMKSMNFDNPVYLKT
TEEDLSIDIGRHSASVGHTYPAISVVSTDDDLA
Sequence length 873
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Spinocerebellar ataxia
Lipid and atherosclerosis
  Reelin signalling pathway
VLDLR internalisation and degradation
VLDL clearance
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
36
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Abnormality of the nervous system Pathogenic rs2130810638 RCV001814487
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Cerebellar ataxia, intellectual disability, and dysequilibrium syndrome 1 Pathogenic; Likely pathogenic rs1428899305, rs2130810631, rs2130785730, rs141396971, rs1404412704, rs761330915, rs797046092, rs770269674, rs1563758564, rs2488718618, rs778298702, rs80338907, rs80338906, rs1817930102, rs2488711363
View all (8 more)
RCV005040332
RCV001784014
RCV001807943
RCV002227004
RCV002283985
View all (18 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Cerebellar hypoplasia Pathogenic rs397514750 RCV004798764
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Dysequilibrium syndrome Likely pathogenic rs2130801524 RCV002272962
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ALZHEIMERS DISEASE Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTISTIC DISORDER CTD, Disgenet
CTD, Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTOIMMUNE THROMBOCYTOPENIC PURPURA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Adrenoleukodystrophy Adrenoleukodystrophy BEFREE 24170703
★☆☆☆☆
Found in Text Mining only
Age related macular degeneration Age-related macular degeneration BEFREE 16384981, 30912953
★☆☆☆☆
Found in Text Mining only
Age related macular degeneration Age-related macular degeneration LHGDN 16384981
★☆☆☆☆
Found in Text Mining only
Alzheimer Disease, Late Onset Alzheimer disease BEFREE 9181358, 9502209
★☆☆☆☆
Found in Text Mining only
Arteriosclerosis Arteriosclerosis BEFREE 11254915, 12063775, 29042132, 8669483, 9445249
★☆☆☆☆
Found in Text Mining only
Asthma Asthma BEFREE 24733846
★☆☆☆☆
Found in Text Mining only
Ataxia Ataxia Pubtator 19332571 Associate
★☆☆☆☆
Found in Text Mining only
Atherosclerosis Atherosclerosis BEFREE 11254915, 12063775, 29042132, 8669483, 9445249
★☆☆☆☆
Found in Text Mining only
Atherosclerosis Atherosclerosis Pubtator 29042132, 8669483 Associate
★☆☆☆☆
Found in Text Mining only
Autistic Disorder Autism BEFREE 15820235
★★☆☆☆
Found in Text Mining + Unknown/Other Associations