Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

VLDLR (very low density lipoprotein receptor)

Identity

Other namesCAMRQ1
CARMQ1
CHRMQ1
VLDLRCH
HGNC (Hugo) VLDLR
LocusID (NCBI) 7436
Atlas_Id 52167
Location 9p24.2
Location_base_pair Starts at 2621793 and ends at 2654485 bp from pter ( according to hg19-Feb_2009)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)VLDLR   12698
Cards
Entrez_Gene (NCBI)VLDLR  7436  very low density lipoprotein receptor
GeneCards (Weizmann)VLDLR
Ensembl hg19 (Hinxton)ENSG00000147852 [Gene_View]  chr9:2621793-2654485 [Contig_View]  VLDLR [Vega]
Ensembl hg38 (Hinxton)ENSG00000147852 [Gene_View]  chr9:2621793-2654485 [Contig_View]  VLDLR [Vega]
ICGC DataPortalENSG00000147852
TCGA cBioPortalVLDLR
AceView (NCBI)VLDLR
Genatlas (Paris)VLDLR
WikiGenes7436
SOURCE (Princeton)VLDLR
Genomic and cartography
GoldenPath hg19 (UCSC)VLDLR  -     chr9:2621793-2654485 +  9p24.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)VLDLR  -     9p24.2   [Description]    (hg38-Dec_2013)
EnsemblVLDLR - 9p24.2 [CytoView hg19]  VLDLR - 9p24.2 [CytoView hg38]
Mapping of homologs : NCBIVLDLR [Mapview hg19]  VLDLR [Mapview hg38]
OMIM192977   224050   
Gene and transcription
Genbank (Entrez)AA758887 AB208822 AK092381 AK095744 AK289527
RefSeq transcript (Entrez)NM_001018056 NM_003383
RefSeq genomic (Entrez)NC_000009 NC_018920 NG_012741 NT_008413 NW_004929342
Consensus coding sequences : CCDS (NCBI)VLDLR
Cluster EST : UnigeneHs.370422 [ NCBI ]
CGAP (NCI)Hs.370422
Alternative Splicing : Fast-db (Paris)GSHG0029987
Alternative Splicing GalleryENSG00000147852
Gene ExpressionVLDLR [ NCBI-GEO ]     VLDLR [ SEEK ]   VLDLR [ MEM ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)7436
Protein : pattern, domain, 3D structure
UniProt/SwissProtP98155 (Uniprot)
NextProtP98155  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP98155
Splice isoforms : SwissVarP98155 (Swissvar)
PhosPhoSitePlusP98155
Domaine pattern : Prosite (Expaxy)ASX_HYDROXYL (PS00010)    EGF_2 (PS01186)    EGF_3 (PS50026)    EGF_CA (PS01187)    LDLRA_1 (PS01209)    LDLRA_2 (PS50068)    LDLRB (PS51120)   
Domains : Interpro (EBI)6-blade_b-propeller_TolB-like    EG-like_dom    EGF-like_Ca-bd_dom    EGF-like_CS    EGF-type_Asp/Asn_hydroxyl_site    EGF_Ca-bd_CS    LDLR_class-A_CS    LDLR_classB_rpt    LDrepeatLR_classA_rpt   
Domain families : Pfam (Sanger)EGF_CA (PF07645)    Ldl_recept_a (PF00057)    Ldl_recept_b (PF00058)   
Domain families : Pfam (NCBI)pfam07645    pfam00057    pfam00058   
Domain families : Smart (EMBL)EGF (SM00181)  EGF_CA (SM00179)  LDLa (SM00192)  LY (SM00135)  
DMDM Disease mutations7436
Blocks (Seattle)VLDLR
PDB (SRS)1V9U    3DPR   
PDB (PDBSum)1V9U    3DPR   
PDB (IMB)1V9U    3DPR   
PDB (RSDB)1V9U    3DPR   
Structural Biology KnowledgeBase1V9U    3DPR   
SCOP (Structural Classification of Proteins)1V9U    3DPR   
CATH (Classification of proteins structures)1V9U    3DPR   
Human Protein AtlasENSG00000147852
Peptide AtlasP98155
HPRD01895
IPIIPI00024273   IPI00219353   IPI00556192   IPI00385798   IPI00478139   
Protein Interaction databases
DIP (DOE-UCLA)P98155
IntAct (EBI)P98155
FunCoupENSG00000147852
BioGRIDVLDLR
IntegromeDBVLDLR
STRING (EMBL)VLDLR
ZODIACVLDLR
Ontologies - Pathways
QuickGOP98155
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  glycoprotein binding  low-density lipoprotein receptor activity  calcium ion binding  protein binding  nucleus  plasma membrane  coated pit  lipid transport  receptor-mediated endocytosis  signal transduction  nervous system development  heart development  response to nutrient  memory  cholesterol metabolic process  cell surface  membrane  integral component of membrane  ventral spinal cord development  cerebral cortex development  very-low-density lipoprotein particle receptor activity  cellular response to insulin stimulus  apolipoprotein binding  apolipoprotein binding  very-low-density lipoprotein particle binding  very-low-density lipoprotein particle  glycoprotein transport  glycoprotein transporter activity  very-low-density lipoprotein particle clearance  reelin receptor activity  reelin-mediated signaling pathway  cellular response to glucose starvation  response to drug  receptor complex  apical part of cell  positive regulation of protein kinase activity  calcium-dependent protein binding  perinuclear region of cytoplasm  dendrite morphogenesis  cellular response to lipopolysaccharide  cellular response to interleukin-1  cellular response to hypoxia  positive regulation of dendrite development  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  glycoprotein binding  low-density lipoprotein receptor activity  calcium ion binding  protein binding  nucleus  plasma membrane  coated pit  lipid transport  receptor-mediated endocytosis  signal transduction  nervous system development  heart development  response to nutrient  memory  cholesterol metabolic process  cell surface  membrane  integral component of membrane  ventral spinal cord development  cerebral cortex development  very-low-density lipoprotein particle receptor activity  cellular response to insulin stimulus  apolipoprotein binding  apolipoprotein binding  very-low-density lipoprotein particle binding  very-low-density lipoprotein particle  glycoprotein transport  glycoprotein transporter activity  very-low-density lipoprotein particle clearance  reelin receptor activity  reelin-mediated signaling pathway  cellular response to glucose starvation  response to drug  receptor complex  apical part of cell  positive regulation of protein kinase activity  calcium-dependent protein binding  perinuclear region of cytoplasm  dendrite morphogenesis  cellular response to lipopolysaccharide  cellular response to interleukin-1  cellular response to hypoxia  positive regulation of dendrite development  
Pathways : BIOCARTAReelin Signaling Pathway [Genes]   
Protein Interaction DatabaseVLDLR
Atlas of Cancer Signalling NetworkVLDLR
Wikipedia pathwaysVLDLR
Orthology - Evolution
OrthoDB7436
GeneTree (enSembl)ENSG00000147852
Phylogenetic Trees/Animal Genes : TreeFamVLDLR
Homologs : HomoloGeneVLDLR
Homology/Alignments : Family Browser (UCSC)VLDLR
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerVLDLR [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VLDLR
dbVarVLDLR
ClinVarVLDLR
1000_GenomesVLDLR 
Exome Variant ServerVLDLR
Exome Aggregation Consortium (ExAC)ENSG00000147852
SNP (GeneSNP Utah)VLDLR
SNP : HGBaseVLDLR
Genetic variants : HAPMAPVLDLR
Genomic Variants (DGV)VLDLR [DGVbeta]
Mutations
ICGC Data PortalVLDLR 
TCGA Data PortalVLDLR 
Tumor PortalVLDLR
TCGA Copy Number PortalVLDLR
Somatic Mutations in Cancer : COSMICVLDLR 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch VLDLR
DgiDB (Drug Gene Interaction Database)VLDLR
DoCM (Curated mutations)VLDLR (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VLDLR (select a term)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)9:2621793-2654485
CONAN: Copy Number AnalysisVLDLR 
Mutations and Diseases : HGMDVLDLR
OMIM192977    224050   
MedgenVLDLR
NextProtP98155 [Medical]
TSGene7436
GENETestsVLDLR
Huge Navigator VLDLR [HugePedia]  VLDLR [HugeCancerGEM]
snp3D : Map Gene to Disease7436
BioCentury BCIQVLDLR
General knowledge
Chemical/Protein Interactions : CTD7436
Chemical/Pharm GKB GenePA37317
Clinical trialVLDLR
Other databases
Probes
Litterature
PubMed87 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVLDLR
GoPubMedVLDLR
iHOPVLDLR
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Jan 16 19:44:15 CET 2016

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.