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    Abca1 ATP binding cassette subfamily A member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313210, updated on 4-Jan-2025

    Summary

    Official Symbol
    Abca1provided by RGD
    Official Full Name
    ATP binding cassette subfamily A member 1provided by RGD
    Primary source
    RGD:631344
    See related
    EnsemblRapid:ENSRNOG00000018126 AllianceGenome:RGD:631344
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables ATPase-coupled transmembrane transporter activity and high-density lipoprotein particle binding activity. Involved in several processes, including cellular response to cholesterol; lipoprotein biosynthetic process; and response to vitamin B3. Located in basolateral plasma membrane and cell surface. Biomarker of several diseases, including end stage renal disease; extrahepatic cholestasis; liver disease (multiple); membranous glomerulonephritis; and premature menopause. 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, Jan 2025]
    Expression
    Biased expression in Adrenal (RPKM 586.5), Liver (RPKM 371.6) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Abca1 in Genome Data Viewer
    Location:
    5q23-q24
    Exon count:
    51
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (72473676..72596563, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (67678267..67801162, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (69857717..69983042, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134478970 Neighboring gene nipsnap homolog 3B Neighboring gene uncharacterized LOC103692353 Neighboring gene uncharacterized LOC134478971

    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

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ABC-type transporter activity  
    enables ATP binding  
    enables ATP hydrolysis activity  
    enables ATPase binding  
    enables ATPase-coupled transmembrane transporter activity  
    enables ATPase-coupled transmembrane transporter activity PubMed 
    enables ATPase-coupled transmembrane transporter activity PubMed 
    enables apolipoprotein A-I binding  
    enables apolipoprotein A-I receptor activity  
    enables apolipoprotein binding  
    enables cholesterol transfer activity  
    enables floppase activity  
    enables high-density lipoprotein particle binding PubMed 
    enables phosphatidylcholine binding  
    enables phosphatidylcholine floppase activity  
    enables phosphatidylcholine floppase activity  
    enables phosphatidylserine floppase activity  
    enables phosphatidylserine floppase activity  
    enables phospholipid transporter activity  
    enables protein transmembrane transporter activity  
    enables signaling receptor binding  
    enables small GTPase binding  
    enables sphingolipid floppase activity  
    enables syntaxin binding  
    Items 1 - 25 of 51
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway  
    involved_in adenylate cyclase-activating G protein-coupled receptor signaling pathway  
    involved_in apolipoprotein A-I-mediated signaling pathway  
    involved_in cellular response to cholesterol PubMed 
    involved_in cellular response to cytokine stimulus PubMed 
    NOT involved_in cellular response to high density lipoprotein particle stimulus  
    involved_in cellular response to lipopolysaccharide  
    involved_in cellular response to retinoic acid  
    involved_in cellular response to xenobiotic stimulus PubMed 
    acts_upstream_of_or_within cholesterol efflux  
    involved_in cholesterol efflux  
    involved_in cholesterol homeostasis  
    acts_upstream_of_or_within cholesterol metabolic process  
    involved_in cholesterol metabolic process  
    involved_in cholesterol transport PubMed 
    involved_in cholesterol transport PubMed 
    involved_in endosomal transport  
    acts_upstream_of_or_within establishment of localization in cell  
    involved_in export across plasma membrane  
    involved_in high-density lipoprotein particle assembly  
    involved_in intracellular cholesterol transport  
    involved_in lipoprotein biosynthetic process PubMed 
    involved_in lipoprotein biosynthetic process PubMed 
    acts_upstream_of_or_within lipoprotein biosynthetic process  
    acts_upstream_of_or_within lipoprotein metabolic process  
    involved_in lysosome organization  
    acts_upstream_of_or_within peptide secretion  
    acts_upstream_of_or_within phagocytosis, engulfment  
    involved_in phospholipid efflux  
    acts_upstream_of_or_within phospholipid efflux  
    involved_in phospholipid efflux  
    involved_in phospholipid homeostasis  
    acts_upstream_of_or_within phospholipid translocation  
    involved_in phospholipid translocation  
    involved_in phospholipid transport PubMed 
    involved_in phospholipid transport PubMed 
    involved_in platelet dense granule organization  
    involved_in positive regulation of cholesterol efflux  
    involved_in positive regulation of high-density lipoprotein particle assembly  
    acts_upstream_of_or_within protein lipidation  
    involved_in protein secretion  
    involved_in protein transmembrane transport  
    involved_in regulation of Cdc42 protein signal transduction  
    involved_in response to laminar fluid shear stress  
    involved_in response to nutrient PubMed 
    involved_in response to nutrient levels PubMed 
    involved_in response to vitamin B3 PubMed 
    involved_in response to xenobiotic stimulus PubMed 
    involved_in reverse cholesterol transport  
    involved_in signal release  
    involved_in sphingolipid translocation  
    Items 1 - 25 of 51
    Component Evidence Code Pubs
    located_in Golgi apparatus  
    located_in apical plasma membrane  
    located_in basolateral plasma membrane PubMed 
    located_in basolateral plasma membrane  
    located_in cell surface PubMed 
    located_in endocytic vesicle  
    located_in endosome  
    located_in external side of plasma membrane  
    is_active_in intracellular membrane-bounded organelle  
    located_in intracellular membrane-bounded organelle  
    located_in intracellular vesicle  
    located_in membrane raft  
    located_in perinuclear region of cytoplasm  
    located_in phagocytic vesicle  
    located_in plasma membrane  

    General protein information

    Preferred Names
    phospholipid-transporting ATPase ABCA1
    Names
    ATP-binding cassette sub-family A member 1
    ATP-binding cassette, sub-family A (ABC1), member 1
    ATP-binding cassette, subfamily A (ABC1), member 1
    NP_835196.2
    XP_038965774.1

    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_178095.3NP_835196.2  phospholipid-transporting ATPase ABCA1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6KDN7, F1LNL3
      Related
      ENSRNOP00000024564.9, ENSRNOT00000024564.9
      Conserved Domains (1) summary
      TIGR01257
      Location:12236
      rim_protein; retinal-specific rim ABC transporter

    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_086023.1 Reference GRCr8

      Range
      72473676..72596563 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109846.2XP_038965774.1  phospholipid-transporting ATPase ABCA1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZLK5, F1LNL3
      Related
      ENSRNOP00000078596.1, ENSRNOT00000110113.2
      Conserved Domains (1) summary
      TIGR01257
      Location:12238
      rim_protein; retinal-specific rim ABC transporter
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