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    APOM apolipoprotein M [ Homo sapiens (human) ]

    Gene ID: 55937, updated on 25-Jun-2017
    Official Symbol
    APOMprovided by HGNC
    Official Full Name
    apolipoprotein Mprovided by HGNC
    Primary source
    HGNC:HGNC:13916
    See related
    Ensembl:ENSG00000204444 MIM:606907; Vega:OTTHUMG00000031250
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    G3a; NG20; apo-M; HSPC336
    Summary
    The protein encoded by this gene is an apolipoprotein and member of the lipocalin protein family. It is found associated with high density lipoproteins and to a lesser extent with low density lipoproteins and triglyceride-rich lipoproteins. The encoded protein is secreted through the plasma membrane but remains membrane-bound, where it is involved in lipid transport. Alternate splicing results in both coding and non-coding variants of this gene. [provided by RefSeq, Jan 2012]
    Orthologs
    Location:
    6p21.33
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 6 NC_000006.12 (31652410..31658210)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31620187..31625987)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene proline rich coiled-coil 2A Neighboring gene small nucleolar RNA, H/ACA box 38 Neighboring gene microRNA 6832 Neighboring gene BCL2 associated athanogene 6 Neighboring gene chromosome 6 open reading frame 47 Neighboring gene G-patch domain and ankyrin repeats 1 Neighboring gene casein kinase 2 beta

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    NHGRI GWAS Catalog

    Description
    A genome-wide association study of lung cancer identifies a region of chromosome 5p15 associated with risk for adenocarcinoma.
    NHGRI GWA Catalog
    Common 5p15.33 and 6p21.33 variants influence lung cancer risk.
    NHGRI GWA Catalog
    Common variants at the promoter region of the APOM confer a risk of rheumatoid arthritis.
    NHGRI GWA Catalog
    Deciphering the impact of common genetic variation on lung cancer risk: a genome-wide association study.
    NHGRI GWA Catalog
    • Metabolism, organism-specific biosystem (from REACTOME)
      Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
    • Metabolism of fat-soluble vitamins, organism-specific biosystem (from REACTOME)
      Metabolism of fat-soluble vitamins, organism-specific biosystemVitamins A, D, E, and K are classified as fat-soluble. Metabolic pathways by which dietary precursors of vitamins A (Harrison 2005) and K(Shearer et al. 2012) are converted to active forms, and by wh...
    • Metabolism of vitamins and cofactors, organism-specific biosystem (from REACTOME)
      Metabolism of vitamins and cofactors, organism-specific biosystemVitamins are a diverse group of organic compounds, classified according to their solubility, either fat-soluble or water-soluble, that are either not synthesized or synthesized only in limited amount...
    • Retinoid metabolism and transport, organism-specific biosystem (from REACTOME)
      Retinoid metabolism and transport, organism-specific biosystemVitamin A (all-trans-retinol) must be taken up, either as carotenes from plants, or as retinyl esters from animal food. The most prominent carotenes are alpha-carotene, lycopene, lutein, beta-cryptox...
    • Signal Transduction, organism-specific biosystem (from REACTOME)
      Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
    • Visual phototransduction, organism-specific biosystem (from REACTOME)
      Visual phototransduction, organism-specific biosystemVisual phototransduction is the process by which photon absorption by visual pigment molecules in photoreceptor cells is converted to an electrical cellular response. The events in this process are p...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • MGC22400

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    antioxidant activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    lipid transporter activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    phospholipid binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    cellular oxidant detoxification IEA
    Inferred from Electronic Annotation
    more info
     
    cholesterol efflux IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cholesterol efflux IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cholesterol homeostasis IC
    Inferred by Curator
    more info
    PubMed 
    high-density lipoprotein particle assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    high-density lipoprotein particle clearance ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    high-density lipoprotein particle remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    lipoprotein metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of plasma lipoprotein oxidation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    response to glucose IEA
    Inferred from Electronic Annotation
    more info
     
    retinoid metabolic process TAS
    Traceable Author Statement
    more info
     
    reverse cholesterol transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    Component Evidence Code Pubs
    discoidal high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular exosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular region TAS
    Traceable Author Statement
    more info
     
    high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of plasma membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    low-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    spherical high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    very-low-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Preferred Names
    apolipoprotein M
    Names
    NG20-like protein
    alternative name: G3a, NG20
    protein G3a

    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_001256169.1NP_001243098.1  apolipoprotein M isoform 2

      See identical proteins and their annotated locations for NP_001243098.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AA476324, CB054016, CN428415
      Consensus CDS
      CCDS59004.1
      UniProtKB/Swiss-Prot
      O95445
      Related
      ENSP00000365085.4, OTTHUMP00000029365, ENST00000375920.8, OTTHUMT00000076528
      Conserved Domains (1) summary
      cl21528
      Location:1115
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family
    2. NM_019101.2NP_061974.2  apolipoprotein M isoform 1

      See identical proteins and their annotated locations for NP_061974.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC020683, BG564719
      Consensus CDS
      CCDS4710.1
      UniProtKB/Swiss-Prot
      O95445
      Related
      ENSP00000365081.3, OTTHUMP00000029364, ENST00000375916.3, OTTHUMT00000076527
      Conserved Domains (1) summary
      cl21528
      Location:1187
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    RNA

    1. NR_045828.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) has multiple differences, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region, found in variant 1.
      Source sequence(s)
      AA846749, AL662801, BF344944, CB054016

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

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

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p7 Primary Assembly

      Range
      31652410..31658210
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006715150.3XP_006715213.1  apolipoprotein M isoform X1

      See identical proteins and their annotated locations for XP_006715213.1

      Conserved Domains (1) summary
      cl21528
      Location:59155
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    Reference GRCh38.p7 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.3 Reference GRCh38.p7 ALT_REF_LOCI_2

      Range
      3129700..3135499
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p7 ALT_REF_LOCI_3

    Genomic

    1. NT_167245.2 Reference GRCh38.p7 ALT_REF_LOCI_3

      Range
      2900181..2905981
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p7 ALT_REF_LOCI_4

    Genomic

    1. NT_167246.2 Reference GRCh38.p7 ALT_REF_LOCI_4

      Range
      2957456..2963256
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p7 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.2 Reference GRCh38.p7 ALT_REF_LOCI_5

      Range
      2994282..3000082
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p7 ALT_REF_LOCI_6

    Genomic

    1. NT_167248.2 Reference GRCh38.p7 ALT_REF_LOCI_6

      Range
      2908229..2914028
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p7 ALT_REF_LOCI_7

    Genomic

    1. NT_167249.2 Reference GRCh38.p7 ALT_REF_LOCI_7

      Range
      2951688..2957487
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.1

    Genomic

    1. NC_018917.2 Alternate CHM1_1.1

      Range
      31622323..31628123
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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