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    Apob apolipoprotein B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 54225, updated on 10-Jul-2024

    Summary

    Official Symbol
    Apobprovided by RGD
    Official Full Name
    apolipoprotein Bprovided by RGD
    Primary source
    RGD:2129
    See related
    EnsemblRapid:ENSRNOG00000005542 AllianceGenome:RGD:2129
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Aa1064; Ac1-060; ApoB-48; ApoB-100; Apo B-100
    Summary
    This gene product is the main apolipoprotein of chylomicrons and low density lipoproteins. It occurs in plasma as two main isoforms, apoB-L and apoB-H. Unlike the apoB-48 and apoB-100 structural equivalents in human, which are synthesized exclusively in the gut and liver, respectively, the rat apoBL isoform is also found in rat liver. The intestinal and the hepatic forms of apoB are encoded by a single gene from a single, very long mRNA. The two isoforms share a common N-terminal sequence. The shorter apoB-L protein is produced after RNA editing of the apoB-H transcript at residue 2180 (CAA->UAA), resulting in the creation of a stop codon, and early translation termination. [provided by RefSeq, Jul 2008]
    Expression
    Restricted expression toward (RPKM 8913.6) See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Apob in Genome Data Viewer
    Location:
    6q14
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (36563704..36603300)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (30844386..30883983)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (33176826..33216381)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102556187 Neighboring gene tudor domain containing 15 Neighboring gene cyclin F, pseudogene 2 Neighboring gene uncharacterized LOC103692595

    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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cholesterol transfer activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cholesterol transfer activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cholesterol transfer activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables heparin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables heparin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipase binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables lipase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipid transporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables low-density lipoprotein particle receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables low-density lipoprotein particle receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables low-density lipoprotein particle receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables phospholipid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables phospholipid binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in artery morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within artery morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to prostaglandin stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in cellular response to tumor necrosis factor IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in cholesterol efflux IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cholesterol efflux ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cholesterol homeostasis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cholesterol homeostasis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cholesterol homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cholesterol homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cholesterol metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cholesterol metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cholesterol transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within cholesterol transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cholesterol transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in establishment of localization in cell IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within establishment of localization in cell ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in fertilization IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within fertilization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in flagellated sperm motility IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within flagellated sperm motility ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in in utero embryonic development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within lipid catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within lipid metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lipid transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in lipoprotein biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within lipoprotein biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lipoprotein catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within lipoprotein catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within lipoprotein metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lipoprotein transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in lipoprotein transport IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within lipoprotein transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in low-density lipoprotein particle clearance IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in low-density lipoprotein particle clearance ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in low-density lipoprotein particle remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in low-density lipoprotein particle remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within nervous system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cholesterol storage IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of cholesterol storage ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of lipid storage ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of macrophage derived foam cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of macrophage derived foam cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in post-embryonic development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within post-embryonic development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cholesterol biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of cholesterol biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to carbohydrate IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in response to estradiol 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 selenium ion IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to virus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in response to virus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in triglyceride catabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in triglyceride catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within triglyceride catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in triglyceride mobilization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in triglyceride mobilization IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within triglyceride mobilization ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of chylomicron ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum exit site IEA
    Inferred from Electronic Annotation
    more info
     
    located_in endoplasmic reticulum exit site ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of intermediate-density lipoprotein particle IEA
    Inferred from Electronic Annotation
    more info
     
    part_of intermediate-density lipoprotein particle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in lipid droplet IEA
    Inferred from Electronic Annotation
    more info
     
    part_of low-density lipoprotein particle IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of low-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of low-density lipoprotein particle IEA
    Inferred from Electronic Annotation
    more info
     
    part_of low-density lipoprotein particle ISO
    Inferred from Sequence Orthology
    more info
     
    part_of mature chylomicron IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of mature chylomicron IEA
    Inferred from Electronic Annotation
    more info
     
    part_of mature chylomicron ISO
    Inferred from Sequence Orthology
    more info
     
    located_in neuronal cell body IEA
    Inferred from Electronic Annotation
    more info
     
    located_in neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
     
    part_of very-low-density lipoprotein particle IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of very-low-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of very-low-density lipoprotein particle IEA
    Inferred from Electronic Annotation
    more info
     
    part_of very-low-density lipoprotein particle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in vesicle lumen IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    apolipoprotein B-100
    Names
    apolipoprotein B (including Ag(x) antigen)
    apolipoprotein B PI
    apolipoprotein B-48

    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_019287.2NP_062160.2  apolipoprotein B-100 precursor

      Status: REVIEWED

      Source sequence(s)
      AA997806, AY318958, BC098761, CB694353, CB771776, CB801343, CV796295
      UniProtKB/TrEMBL
      A0A8I6AJ20, F1M6Z1
      Related
      ENSRNOP00000007371.5, ENSRNOT00000007371.8
      Conserved Domains (5) summary
      smart00638
      Location:46598
      LPD_N; Lipoprotein N-terminal Domain
      COG1340
      Location:22062485
      COG1340; Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown]
      pfam06448
      Location:9621063
      DUF1081; Domain of Unknown Function (DUF1081)
      pfam09172
      Location:633945
      DUF1943; Domain of unknown function (DUF1943)
      pfam12491
      Location:44354491
      ApoB100_C; Apolipoprotein B100 C terminal

    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_086024.1 Reference GRCr8

      Range
      36563704..36603300
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)