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APOB (apolipoprotein B)

Identity

Other namesFLDB
LDLCQ4
HGNC (Hugo) APOB
LocusID (NCBI) 338
Location 2p24.1
Location_base_pair Starts at 21224301 and ends at 21266945 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)APOB   603
Cards
Entrez_Gene (NCBI)APOB  338  apolipoprotein B
GeneCards (Weizmann)APOB
Ensembl hg19 (Hinxton)ENSG00000084674 [Gene_View]  chr2:21224301-21266945 [Contig_View]  APOB [Vega]
Ensembl hg38 (Hinxton)ENSG00000084674 [Gene_View]  chr2:21224301-21266945 [Contig_View]  APOB [Vega]
ICGC DataPortalENSG00000084674
cBioPortalAPOB
AceView (NCBI)APOB
Genatlas (Paris)APOB
WikiGenes338
SOURCE (Princeton)APOB
Genomic and cartography
GoldenPath hg19 (UCSC)APOB  -     chr2:21224301-21266945 -  2p24.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)APOB  -     2p24.1   [Description]    (hg38-Dec_2013)
EnsemblAPOB - 2p24.1 [CytoView hg19]  APOB - 2p24.1 [CytoView hg38]
Mapping of homologs : NCBIAPOB [Mapview hg19]  APOB [Mapview hg38]
OMIM107730   144010   615558   
Gene and transcription
Genbank (Entrez)AB208846 AJ399514 AK290844 BC051278 GU014832
RefSeq transcript (Entrez)NM_000384
RefSeq genomic (Entrez)AC_000134 NC_000002 NC_018913 NG_011793 NT_022184 NW_001838768 NW_004929300
Consensus coding sequences : CCDS (NCBI)APOB
Cluster EST : UnigeneHs.120759 [ NCBI ]
CGAP (NCI)Hs.120759
Alternative Splicing : Fast-db (Paris)GSHG0017464
Alternative Splicing GalleryENSG00000084674
Gene ExpressionAPOB [ NCBI-GEO ]     APOB [ SEEK ]   APOB [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04114 (Uniprot)
NextProtP04114  [Medical]
With graphics : InterProP04114
Splice isoforms : SwissVarP04114 (Swissvar)
Domaine pattern : Prosite (Expaxy)VITELLOGENIN (PS51211)   
Domains : Interpro (EBI)ApoB100_C    ARM-type_fold    Lipid_transp_b-sht_shell    Lipid_transpt_N    Lipid_transpt_open_b-sht    Vitellinogen_b-sht_N    Vitellinogen_open_b-sht    Vitellinogen_open_b-sht_sub1    Vitellinogen_open_b-sht_sub2    Vitellinogen_superhlx   
Related proteins : CluSTrP04114
Domain families : Pfam (Sanger)ApoB100_C (PF12491)    DUF1081 (PF06448)    DUF1943 (PF09172)    Vitellogenin_N (PF01347)   
Domain families : Pfam (NCBI)pfam12491    pfam06448    pfam09172    pfam01347   
Domain families : Smart (EMBL)LPD_N (SM00638)  
DMDM Disease mutations338
Blocks (Seattle)P04114
Human Protein AtlasENSG00000084674
Peptide AtlasP04114
HPRD00133
IPIIPI00022229   IPI01014270   IPI00894122   
Protein Interaction databases
DIP (DOE-UCLA)P04114
IntAct (EBI)P04114
FunCoupENSG00000084674
BioGRIDAPOB
IntegromeDBAPOB
STRING (EMBL)APOB
Ontologies - Pathways
QuickGOP04114
Ontology : AmiGOretinoid metabolic process  in utero embryonic development  protein binding  phospholipid binding  extracellular region  extracellular space  cytoplasm  early endosome  endoplasmic reticulum lumen  endoplasmic reticulum membrane  Golgi apparatus  cytosol  plasma membrane  plasma membrane  triglyceride mobilization  receptor-mediated endocytosis  spermatogenesis  nervous system development  blood coagulation  phototransduction, visible light  heparin binding  cholesterol metabolic process  fertilization  response to virus  response to carbohydrate  post-embryonic development  endosome membrane  response to selenium ion  positive regulation of macrophage derived foam cell differentiation  positive regulation of lipid storage  positive regulation of cholesterol storage  actin cytoskeleton  cholesterol transporter activity  triglyceride catabolic process  cholesterol transport  sperm motility  clathrin-coated endocytic vesicle membrane  endosome lumen  response to lipopolysaccharide  cholesterol efflux  mature chylomicron  chylomicron remnant  very-low-density lipoprotein particle  low-density lipoprotein particle  intermediate-density lipoprotein particle  low-density lipoprotein particle remodeling  very-low-density lipoprotein particle assembly  low-density lipoprotein particle clearance  lipase binding  lipoprotein metabolic process  lipoprotein biosynthetic process  lipoprotein catabolic process  chylomicron  cholesterol homeostasis  lipoprotein transport  intracellular membrane-bounded organelle  small molecule metabolic process  regulation of cholesterol biosynthetic process  artery morphogenesis  low-density lipoprotein particle receptor binding  leukocyte migration  cellular response to tumor necrosis factor  cellular response to prostaglandin stimulus  endocytic vesicle lumen  
Ontology : EGO-EBIretinoid metabolic process  in utero embryonic development  protein binding  phospholipid binding  extracellular region  extracellular space  cytoplasm  early endosome  endoplasmic reticulum lumen  endoplasmic reticulum membrane  Golgi apparatus  cytosol  plasma membrane  plasma membrane  triglyceride mobilization  receptor-mediated endocytosis  spermatogenesis  nervous system development  blood coagulation  phototransduction, visible light  heparin binding  cholesterol metabolic process  fertilization  response to virus  response to carbohydrate  post-embryonic development  endosome membrane  response to selenium ion  positive regulation of macrophage derived foam cell differentiation  positive regulation of lipid storage  positive regulation of cholesterol storage  actin cytoskeleton  cholesterol transporter activity  triglyceride catabolic process  cholesterol transport  sperm motility  clathrin-coated endocytic vesicle membrane  endosome lumen  response to lipopolysaccharide  cholesterol efflux  mature chylomicron  chylomicron remnant  very-low-density lipoprotein particle  low-density lipoprotein particle  intermediate-density lipoprotein particle  low-density lipoprotein particle remodeling  very-low-density lipoprotein particle assembly  low-density lipoprotein particle clearance  lipase binding  lipoprotein metabolic process  lipoprotein biosynthetic process  lipoprotein catabolic process  chylomicron  cholesterol homeostasis  lipoprotein transport  intracellular membrane-bounded organelle  small molecule metabolic process  regulation of cholesterol biosynthetic process  artery morphogenesis  low-density lipoprotein particle receptor binding  leukocyte migration  cellular response to tumor necrosis factor  cellular response to prostaglandin stimulus  endocytic vesicle lumen  
Pathways : KEGGFat digestion and absorption    Vitamin digestion and absorption   
Protein Interaction DatabaseAPOB
DoCM (Curated mutations)APOB
Wikipedia pathwaysAPOB
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerAPOB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)APOB
dbVarAPOB
ClinVarAPOB
1000_GenomesAPOB 
Exome Variant ServerAPOB
SNP (GeneSNP Utah)APOB
SNP : HGBaseAPOB
Genetic variants : HAPMAPAPOB
Genomic VariantsAPOB  APOB [DGVbeta]
Mutations
ICGC Data PortalENSG00000084674 
Somatic Mutations in Cancer : COSMICAPOB 
CONAN: Copy Number AnalysisAPOB 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Mendelian genes
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)2:21224301-21266945
Mutations and Diseases : HGMDAPOB
OMIM107730    144010    615558   
MedgenAPOB
NextProtP04114 [Medical]
GENETestsAPOB
Disease Genetic AssociationAPOB
Huge Navigator APOB [HugePedia]  APOB [HugeCancerGEM]
snp3D : Map Gene to Disease338
DGIdb (Drug Gene Interaction db)APOB
General knowledge
Homologs : HomoloGeneAPOB
Homology/Alignments : Family Browser (UCSC)APOB
Phylogenetic Trees/Animal Genes : TreeFamAPOB
Chemical/Protein Interactions : CTD338
Chemical/Pharm GKB GenePA50
Clinical trialAPOB
Cancer Resource (Charite)ENSG00000084674
Other databases
Probes
Litterature
PubMed499 Pubmed reference(s) in Entrez
CoreMineAPOB
GoPubMedAPOB
iHOPAPOB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Dec 20 20:10:52 CET 2014

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