apoba apolipoprotein Ba [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: apobaprovided by ZNC
Official Full Name: apolipoprotein Baprovided by ZNC
Primary source: ZFIN:ZDB-GENE-070702-4
See related: Ensembl:ENSDARG00000042780 AllianceGenome:ZFIN:ZDB-GENE-070702-4
Gene type: protein coding
RefSeq status: MODEL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: apob; im:6911942; wu:fb30e06
Summary: Predicted to enable cholesterol transfer activity and low-density lipoprotein particle receptor binding activity. Predicted to be involved in several processes, including cholesterol homeostasis; lipoprotein transport; and triglyceride mobilization. Predicted to act upstream of or within lipid transport. Predicted to be located in endoplasmic reticulum. Predicted to be part of low-density lipoprotein particle; mature chylomicron; and very-low-density lipoprotein particle. Is expressed in heart; liver; and yolk syncytial layer. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); biliary tract cancer (multiple); familial hyperlipidemia (multiple); hypobetalipoproteinemia (multiple); and sickle cell anemia. Orthologous to human APOB (apolipoprotein B). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 17

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	17	NC_007128.7 (30704068..30727966)
105	previous assembly	GRCz10 (GCF_000002035.5)	17	NC_007128.6 (30687127..30711003)

Chromosome 17 - NC_007128.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Autotaxin-Lysophosphatidic Acid axis acts downstream of Apoprotein B lipoproteins in endothelial cells.
Title: Autotaxin-Lysophosphatidic Acid Axis Acts Downstream of Apoprotein B Lipoproteins in Endothelial Cells.
found that ApoB negatively regulates angiogenesis and that it is the ApoB protein particle
Title: ApoB-containing lipoproteins regulate angiogenesis by modulating expression of VEGF receptor 1.
Knockdown of ApoB expression in zebrafish embryos leads to similar midline patterning defects as those seen in FucT8 morphant embryos
Title: Core fucosylation is required for midline patterning during zebrafish development.

Submit: New GeneRIF Correction

General gene information

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Markers

fb79f11.x1 (e-PCR)
- UniSTS:191506

fb79f11.x1 (e-PCR)
- UniSTS:191507

fb92h01.y1 (e-PCR)
- UniSTS:191769

fc83g01.x1 (e-PCR)
- UniSTS:194614

fb30e06 (e-PCR)
- UniSTS:189009

Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables cholesterol transfer activity	IBA Inferred from Biological aspect of Ancestor 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

Process	Evidence Code	Pubs
involved_in cholesterol homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in cholesterol transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cholesterol transport	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lipid metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lipid transport	IEA Inferred from Electronic Annotation more info
involved_in lipoprotein transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in triglyceride mobilization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within triglyceride mobilization	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in extracellular region	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
part_of mature chylomicron	IBA Inferred from Biological aspect of Ancestor more info
part_of very-low-density lipoprotein particle	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: apolipoprotein B; apolipoprotein B-100

Names: zmp:0000000614

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007128.7 Reference GRCz11 Primary Assembly

Range

30704068..30727966

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_689735.9 → XP_694827.7 apolipoprotein B-100

UniProtKB/TrEMBL

A0A8N7T7N7

Related

ENSDARP00000062792.3, ENSDART00000062793.5

Conserved Domains (4) summary

pfam06448
Location:939 → 1044

DUF1081; Domain of Unknown Function (DUF1081)

pfam09172
Location:619 → 917

DUF1943; Domain of unknown function (DUF1943)

cl25588
Location:2026 → 2549

NBD94; Nucleotide-Binding Domain 94 of RH

cl26969
Location:39 → 584

Vitellogenin_N; Lipoprotein amino terminal region