Apob apolipoprotein B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Apobprovided by RGD
Official Full Name: apolipoprotein Bprovided by RGD
Primary source: RGD:2129
See related: Ensembl: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: human mouse all
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Genomic context

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_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Riboflavin deficiency affects lipid metabolism partly by reducing apolipoprotein B100 synthesis in rats.
Title: Riboflavin deficiency affects lipid metabolism partly by reducing apolipoprotein B100 synthesis in rats.
enhanced VLDL TG secretion in the absence of hepatocyte ABCA1 is due to altered intracellular trafficking of apolipoprotein B (apoB), resulting in augmented TG addition to nascent VLDL.
Title: Hepatic ABCA1 deficiency is associated with delayed apolipoprotein B secretory trafficking and augmented VLDL triglyceride secretion.
Reduced sortilin levels associate with lower VLDL apo B secretion. Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells.
Title: Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells.
Coordinated up-regulation of Mttp, Apob, Hnf1a, Hnf4a, Fasn, Gpam and Dgat (1 and 2) gene expressions may contribute to the increase in circulating and liver concentrations of TAGs after lipectomy in an experimental rat model
Title: Up-Regulation Mttp and Apob Gene Expression in Rat Liver is Related to Post-Lipectomy Hypertriglyceridemia.
Overall, results further support the importance of Class I PI3K activity in IDAD, and suggest that loss of this activity is sufficient to cause resistance.
Title: Insulin dependent apolipoprotein B degradation and phosphatidylinositide 3-kinase activation with microsomal translocation are restored in McArdle RH7777 cells following serum deprivation.
Octreotide intervention down-regulated expression of apoB mRNA and apoB48 protein, as well as MTP mRNA and proteins. ApoAIV mRNA was not significantly different between obese and octreotide-treated rats.
Title: Octreotide promotes weight loss via suppression of intestinal MTP and apoB48 expression in diet-induced obesity rats.
KLHL12 plays a critical role in facilitating the endoplasmic reticulum exit and secretion of apoB100-VLDL particles, suggesting that KLHL12 modulation would influence plasma lipid levels.
Title: A regulator of secretory vesicle size, Kelch-like protein 12, facilitates the secretion of apolipoprotein B100 and very-low-density lipoproteins--brief report.
Report abnormal gene/protein expression and phosphorylation of multiple pathways related to inflammatory, insulin signaling and lipogenesis may be important underlying factors in VLDL-apoB100 particles overproduction observed in type 2 diabetes.
Title: Multiple factors and pathways involved in hepatic very low density lipoprotein-apoB100 overproduction in Otsuka Long-Evans Tokushima Fatty rats.
Doxycycline induced apoA-IV expression in McA-RH7777 cells alters apoB and lipid secretion.
Title: ApoA-IV modulates the secretory trafficking of apoB and the size of triglyceride-rich lipoproteins.
It was found that rat APOBEC-1 overexpression had a hypermutation pattern similar to that of APOBEC-3s on its substrate apolipoprotein B mRNA.
Title: Hypermutation of ApoB mRNA by rat APOBEC-1 overexpression mimics APOBEC-3 hypermutation.

Submit: New GeneRIF Correction See all GeneRIFs (27)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH130075 (e-PCR)
- UniSTS:213363

AI315052 (e-PCR)
- UniSTS:160183

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 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
involved_in intermembrane lipid transfer	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lipid catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lipid metabolic process	ISO Inferred from Sequence Orthology 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 organic substance	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

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Preferred Names: apolipoprotein B-100

Names: apolipoprotein B (including Ag(x) antigen); apolipoprotein B PI; apolipoprotein B-48

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)

NM_019287.2 → NP_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, ENSRNOT00000007371.7

Conserved Domains (5) summary

smart00638
Location:46 → 598

LPD_N; Lipoprotein N-terminal Domain

COG1340
Location:2206 → 2485

COG1340; Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown]

pfam06448
Location:962 → 1063

DUF1081; Domain of Unknown Function (DUF1081)

pfam09172
Location:633 → 945

DUF1943; Domain of unknown function (DUF1943)

pfam12491
Location:4435 → 4491

ApoB100_C; Apolipoprotein B100 C terminal