U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    APOM apolipoprotein M [ Homo sapiens (human) ]

    Gene ID: 55937, updated on 9-Dec-2024

    Summary

    Official Symbol
    APOMprovided by HGNC
    Official Full Name
    apolipoprotein Mprovided by HGNC
    Primary source
    HGNC:HGNC:13916
    See related
    Ensembl:ENSG00000204444 MIM:606907; AllianceGenome:HGNC:13916
    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]
    Expression
    Biased expression in liver (RPKM 122.3), kidney (RPKM 73.7) and 1 other tissue See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See APOM in Genome Data Viewer
    Location:
    6p21.33
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (31652404..31658210)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (31505437..31511243)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31620181..31625987)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:31591608-31592555 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:31592556-31593502 Neighboring gene proline rich coiled-coil 2A Neighboring gene small nucleolar RNA, H/ACA box 38 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:31602456-31602619 Neighboring gene microRNA 6832 Neighboring gene BAG cochaperone 6 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31619307-31619886 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31619887-31620466 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31620467-31621046 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31627653-31628190 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31628191-31628727 Neighboring gene chromosome 6 open reading frame 47 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31633065-31633659 Neighboring gene G-patch domain and ankyrin repeats 1 Neighboring gene casein kinase 2 beta

    Genomic regions, transcripts, and products

    Expression

    • 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 Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    A genome-wide association study of lung cancer identifies a region of chromosome 5p15 associated with risk for adenocarcinoma.
    EBI GWAS Catalog
    Common 5p15.33 and 6p21.33 variants influence lung cancer risk.
    EBI GWAS Catalog
    Common variants at the promoter region of the APOM confer a risk of rheumatoid arthritis.
    EBI GWAS Catalog
    Deciphering the impact of common genetic variation on lung cancer risk: a genome-wide association study.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC22400

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables antioxidant activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables lipid transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables lipid transporter activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables phospholipid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables phospholipid binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cellular oxidant detoxification IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cholesterol efflux IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cholesterol efflux IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cholesterol efflux IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cholesterol homeostasis IC
    Inferred by Curator
    more info
    PubMed 
    involved_in high-density lipoprotein particle assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in high-density lipoprotein particle assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in high-density lipoprotein particle clearance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in high-density lipoprotein particle clearance ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    involved_in high-density lipoprotein particle remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in high-density lipoprotein particle remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in lipoprotein metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of plasma lipoprotein oxidation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in reverse cholesterol transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of discoidal high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    part_of high-density lipoprotein particle IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 spherical high-density lipoprotein particle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 

    General protein information

    Preferred Names
    apolipoprotein M
    Names
    NG20-like protein
    alternative name: G3a, NG20
    protein G3a

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001256169.2NP_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, AL662801, CB054016, CN428415
      Consensus CDS
      CCDS59004.1
      UniProtKB/TrEMBL
      A0A1U9X793, Q5SRP5
      Related
      ENSP00000365085.4, ENST00000375920.8
      Conserved Domains (1) summary
      cl21528
      Location:1115
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family
    2. NM_019101.3NP_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)
      AL662801
      Consensus CDS
      CCDS4710.1
      UniProtKB/Swiss-Prot
      B0UX98, O95445, Q5SRP4, Q9P046, Q9UMP6
      Related
      ENSP00000365081.3, ENST00000375916.4
      Conserved Domains (1) summary
      cl21528
      Location:1187
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    RNA

    1. NR_045828.2 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: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      31652404..31658210
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006715150.4XP_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.p14 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2

      Range
      3129694..3135499
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054329835.1XP_054185810.1  apolipoprotein M isoform X1

    Reference GRCh38.p14 ALT_REF_LOCI_3

    Genomic

    1. NT_167245.2 Reference GRCh38.p14 ALT_REF_LOCI_3

      Range
      2900175..2905981
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330319.1XP_054186294.1  apolipoprotein M isoform X1

    Reference GRCh38.p14 ALT_REF_LOCI_4

    Genomic

    1. NT_167246.2 Reference GRCh38.p14 ALT_REF_LOCI_4

      Range
      2957450..2963256
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330616.1XP_054186591.1  apolipoprotein M isoform X1

    Reference GRCh38.p14 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5

      Range
      2994276..3000082
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054330836.1XP_054186811.1  apolipoprotein M isoform X1

    Reference GRCh38.p14 ALT_REF_LOCI_6

    Genomic

    1. NT_167248.2 Reference GRCh38.p14 ALT_REF_LOCI_6

      Range
      2908223..2914028
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331096.1XP_054187071.1  apolipoprotein M isoform X1

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7

      Range
      2951682..2957487
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331367.1XP_054187342.1  apolipoprotein M isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      31505437..31511243
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054355927.1XP_054211902.1  apolipoprotein M isoform X1