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abca1a ATP-binding cassette, sub-family A (ABC1), member 1A [ Danio rerio (zebrafish) ]

Gene ID: 558924, updated on 15-Sep-2024

Summary

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Official Symbol
abca1aprovided by ZNC
Official Full Name
ATP-binding cassette, sub-family A (ABC1), member 1Aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-031006-12
See related
Ensembl:ENSDARG00000074635 AllianceGenome:ZFIN:ZDB-GENE-031006-12
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
abca1; cb939; fa03d03; im:6795541; wu:fa03d03; wu:fj13h01
Summary
Predicted to enable ATPase-coupled transmembrane transporter activity; phosphatidylcholine floppase activity; and phosphatidylserine floppase activity. Acts upstream of or within regulation of cholesterol efflux and sprouting angiogenesis. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in intracellular membrane-bounded organelle. Is expressed in several structures, including blood vessel; central nervous system; neural tube; pleuroperitoneal region; and segmental plate. Human ortholog(s) of this gene implicated in Alzheimer's disease; coronary artery disease; hypolipoproteinemia (multiple); obesity; and type 2 diabetes mellitus. Orthologous to human ABCA1 (ATP binding cassette subfamily A member 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See abca1a in Genome Data Viewer
Location:
chromosome: 1
Exon count:
50
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (52560549..52628407)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (51925806..51993669)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108190353 Neighboring gene aspartoacylase (aminocyclase) 3, tandem duplicate 1 Neighboring gene tachykinin receptor 3-like Neighboring gene uncharacterized LOC137495824 Neighboring gene transfer RNA alanine (anticodon UGC) Neighboring gene transfer RNA alanine (anticodon UGC)

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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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Related articles in PubMed

  1. Analysis of mycobacterial infection-induced changes to host lipid metabolism in a zebrafish infection model reveals a conserved role for LDLR in infection susceptibility. Johansen MD, et al. Fish Shellfish Immunol, 2018 Dec. PMID 30219383
  2. Cholesterol lowering by Pediococcus acidilactici LAB4 and Lactobacillus plantarum LAB12 in adult zebrafish is associated with improved memory and involves an interplay between npc1l1 and abca1. Lim FT, et al. Food Funct, 2017 Aug 1. PMID 28725889
  3. Multi-Dimensional Transcriptome Analysis Reveals Modulation of Cholesterol Metabolism as Highly Integrated Response to Brain Injury. Gourain V, et al. Front Neurosci, 2021. PMID 34054419, Free PMC Article
  4. HDL biodistribution and brain receptors in zebrafish, using HDLs as vectors for targeting endothelial cells and neural progenitors. Sulliman NC, et al. Sci Rep, 2021 Mar 19. PMID 33742021, Free PMC Article
  5. Cholestenoic acids regulate motor neuron survival via liver X receptors. Theofilopoulos S, et al. J Clin Invest, 2014 Nov. PMID 25271621, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables ABC-type transporter activity IEA
Inferred from Electronic Annotation
more info
  
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables ATPase-coupled transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatidylcholine floppase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables phosphatidylserine floppase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in phospholipid efflux IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of cholesterol efflux IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within sprouting angiogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in intracellular membrane-bounded organelle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
phospholipid-transporting ATPase ABCA1a

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)

  1. NM_001309465.1 → NP_001296394.1  phospholipid-transporting ATPase ABCA1a

    Status: PROVISIONAL

    Source sequence(s)
    BX004781
    UniProtKB/TrEMBL
    A0A8M1P231, B8A446
    Related
    ENSDARP00000132417.1, ENSDART00000167514.3
    Conserved Domains (2) summary
    TIGR01257
    Location:1 → 2233
    rim_protein; retinal-specific rim ABC transporter
    cd03263
    Location:1919 → 2139
    ABC_subfamily_A; ATP-binding cassette domain of the lipid transporters, subfamily A

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    52560549..52628407
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001145689.1: Suppressed sequence

    Description
    NM_001145689.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein Strain
Heading Accession and Version

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