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Aliases for APOM Gene

Aliases for APOM Gene

  • Apolipoprotein M 2 3 5
  • Protein G3a 3 4
  • Apo-M 3 4
  • NG20 3 4
  • G3a 3 4
  • Alternative Name: G3a, NG20 3
  • NG20-Like Protein 3
  • HSPC336 3
  • ApoM 4

External Ids for APOM Gene

Previous GeneCards Identifiers for APOM Gene

  • GC06P031687
  • GC06P031390
  • GC06P031727
  • GC06P031731
  • GC06P031620
  • GC06P031410
  • GC06P031660
  • GC06P031678
  • GC06P031743
  • GC06P031800
  • GC06P031861
  • GC06P031901
  • GC06P031944

Summaries for APOM Gene

Entrez Gene Summary for APOM Gene

  • 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]

GeneCards Summary for APOM Gene

APOM (Apolipoprotein M) is a Protein Coding gene. Diseases associated with APOM include Fetal Macrosomia and Arcus Corneae. Among its related pathways are Metabolism and Metabolism of water-soluble vitamins and cofactors. Gene Ontology (GO) annotations related to this gene include phospholipid binding and lipid transporter activity.

UniProtKB/Swiss-Prot for APOM Gene

  • Probably involved in lipid transport. Can bind sphingosine-1-phosphate, myristic acid, palmitic acid and stearic acid, retinol, all-trans-retinoic acid and 9-cis-retinoic acid.

Gene Wiki entry for APOM Gene

Additional gene information for APOM Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for APOM Gene

Genomics for APOM Gene

GeneHancer (GH) Regulatory Elements for APOM Gene

Promoters and enhancers for APOM Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I031650 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.1 55 3.3 CLOCK MLX DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 MEF2D SSRP1 BAG6 APOM ATF6B DDX39B LY6G5B MDC1 LSM2 DHX16 PBX2 NRM
GH06I031567 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.1 -74.0 -73991 22.2 HDGF PKNOX1 SMAD1 MLX ZFP64 ARID4B SIN3A DMAP1 YBX1 ZNF2 TNF LST1 GC06P031585 GC06P031586 GC06P031613 GC06P031616 GC06P031618 GC06P031681 GC06P031751 GC06P031772
GH06I031614 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 11.4 -36.6 -36576 3.7 HDGF HDAC1 ELF3 FOXA2 IRF4 ZNF335 ZNF121 ATF7 ETV6 BCLAF1 AIF1 BAG6 LY6G5B HLA-DRB1 SKIV2L LY6G5C LST1 LTB C4A DDX39B
GH06I031658 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 0.4 +7.7 7728 3.9 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A DMAP1 SLC30A9 POLR2B E2F8 BAG6 C6orf47 C6orf47-AS1 LY6G5C C4A LY6G5B MICB STK19B VWA7 CYP21A1P
GH06I031654 Enhancer 0.9 ENCODE 0.8 +3.0 2957 1.8 FOXA2 MLX ZFP64 ARID4B DMAP1 ZNF48 YY1 SLC30A9 ATF7 RXRA BAG6 MICB LY6G5B MICA-AS1 APOM C6orf47-AS1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around APOM on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the APOM gene promoter:

Genomic Locations for APOM Gene

Genomic Locations for APOM Gene
chr6:31,652,410-31,658,210
(GRCh38/hg38)
Size:
5,801 bases
Orientation:
Plus strand
chr6:31,620,193-31,625,987
(GRCh37/hg19)

Genomic View for APOM Gene

Genes around APOM on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
APOM Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for APOM Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

Proteins for APOM Gene

  • Protein details for APOM Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95445-APOM_HUMAN
    Recommended name:
    Apolipoprotein M
    Protein Accession:
    O95445
    Secondary Accessions:
    • B0UX98
    • Q5SRP4
    • Q9P046
    • Q9UMP6

    Protein attributes for APOM Gene

    Size:
    188 amino acids
    Molecular mass:
    21253 Da
    Quaternary structure:
    • Interacts with LRP2; LRP2 mediates APOM renal uptake and subsequent lysosomal degradation.

    Three dimensional structures from OCA and Proteopedia for APOM Gene

    Alternative splice isoforms for APOM Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for APOM Gene

Post-translational modifications for APOM Gene

Other Protein References for APOM Gene

Antibody Products

  • R&D Systems Antibodies for APOM (Apolipoprotein M/ApoM)
  • Cell Signaling Technology (CST) Antibodies for APOM (APOM)

No data available for DME Specific Peptides for APOM Gene

Domains & Families for APOM Gene

Gene Families for APOM Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for APOM Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for APOM Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O95445

UniProtKB/Swiss-Prot:

APOM_HUMAN :
  • Belongs to the calycin superfamily. Lipocalin family. Highly divergent.
Family:
  • Belongs to the calycin superfamily. Lipocalin family. Highly divergent.
genes like me logo Genes that share domains with APOM: view

Function for APOM Gene

Molecular function for APOM Gene

UniProtKB/Swiss-Prot Function:
Probably involved in lipid transport. Can bind sphingosine-1-phosphate, myristic acid, palmitic acid and stearic acid, retinol, all-trans-retinoic acid and 9-cis-retinoic acid.

Phenotypes From GWAS Catalog for APOM Gene

Gene Ontology (GO) - Molecular Function for APOM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005319 lipid transporter activity IDA 16682745
GO:0005543 phospholipid binding IDA 22204862
GO:0016209 antioxidant activity IDA,IEA 22204862
genes like me logo Genes that share ontologies with APOM: view
genes like me logo Genes that share phenotypes with APOM: view

Animal Models for APOM Gene

MGI Knock Outs for APOM:

Clone Products

  • R&D Systems cDNA Clones for APOM (Apolipoprotein M/ApoM)

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for APOM Gene

Localization for APOM Gene

Subcellular locations from UniProtKB/Swiss-Prot for APOM Gene

Secreted. Note=Present in high density lipoprotein (HDL) and to a lesser extent in triglyceride-rich lipoproteins (TGRLP) and low density lipoproteins (LDL).

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for APOM gene
Compartment Confidence
extracellular 5
plasma membrane 4
mitochondrion 1
peroxisome 1
nucleus 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for APOM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IEA --
GO:0005887 integral component of plasma membrane TAS 10531326
GO:0034361 very-low-density lipoprotein particle IDA 17154273
GO:0034362 low-density lipoprotein particle IDA 16682745
genes like me logo Genes that share ontologies with APOM: view

Pathways & Interactions for APOM Gene

genes like me logo Genes that share pathways with APOM: view

Pathways by source for APOM Gene

Interacting Proteins for APOM Gene

Selected Interacting proteins: O95445-APOM_HUMAN for APOM Gene via IID

Gene Ontology (GO) - Biological Process for APOM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001523 retinoid metabolic process TAS --
GO:0006810 transport IEA --
GO:0006869 lipid transport IEA --
GO:0009749 response to glucose IEA --
GO:0033344 cholesterol efflux IEA,IMP 15793583
genes like me logo Genes that share ontologies with APOM: view

No data available for SIGNOR curated interactions for APOM Gene

Drugs & Compounds for APOM Gene

(4) Drugs for APOM Gene - From: DrugBank and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Myristic acid Experimental Pharma Carrier 0

(2) Additional Compounds for APOM Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with APOM: view

Transcripts for APOM Gene

Unigene Clusters for APOM Gene

Apolipoprotein M:
Representative Sequences:

Clone Products

  • R&D Systems cDNA Clones for APOM (Apolipoprotein M/ApoM)

Alternative Splicing Database (ASD) splice patterns (SP) for APOM Gene

No ASD Table

Relevant External Links for APOM Gene

GeneLoc Exon Structure for
APOM
ECgene alternative splicing isoforms for
APOM

Expression for APOM Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for APOM Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for APOM Gene

This gene is overexpressed in Liver (x29.6) and Kidney - Cortex (x6.0).

Protein differential expression in normal tissues from HIPED for APOM Gene

This gene is overexpressed in Plasma (27.6), Serum (15.8), and Synovial fluid (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for APOM Gene



Protein tissue co-expression partners for APOM Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of APOM Gene:

APOM

SOURCE GeneReport for Unigene cluster for APOM Gene:

Hs.534468

mRNA Expression by UniProt/SwissProt for APOM Gene:

O95445-APOM_HUMAN
Tissue specificity: Plasma protein. Expressed in liver and kidney.

Evidence on tissue expression from TISSUES for APOM Gene

  • Liver(4.7)
  • Blood(4.5)
  • Bone marrow(4)
  • Kidney(3.2)
genes like me logo Genes that share expression patterns with APOM: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for APOM Gene

Orthologs for APOM Gene

This gene was present in the common ancestor of chordates.

Orthologs for APOM Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia APOM 33 34
  • 99.29 (n)
cow
(Bos Taurus)
Mammalia APOM 33 34
  • 91.13 (n)
dog
(Canis familiaris)
Mammalia APOM 33 34
  • 89.18 (n)
mouse
(Mus musculus)
Mammalia Apom 33 16 34
  • 84.4 (n)
rat
(Rattus norvegicus)
Mammalia Apom 33
  • 83.51 (n)
oppossum
(Monodelphis domestica)
Mammalia APOM 34
  • 77 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 56 (a)
OneToMany
-- 34
  • 42 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia APOM 34
  • 45 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia apom 33
  • 53.48 (n)
zebrafish
(Danio rerio)
Actinopterygii apom 34
  • 19 (a)
OneToOne
Species where no ortholog for APOM was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for APOM Gene

ENSEMBL:
Gene Tree for APOM (if available)
TreeFam:
Gene Tree for APOM (if available)

Paralogs for APOM Gene

No data available for Paralogs for APOM Gene

Variants for APOM Gene

Sequence variations from dbSNP and Humsavar for APOM Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000107232 -- 31,653,962(+) T/G genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1001164231 -- 31,652,319(+) A/C upstream_transcript_variant
rs1001492417 -- 31,652,661(+) C/A genic_upstream_transcript_variant, intron_variant
rs1001781736 -- 31,655,079(+) C/T genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1002778502 -- 31,654,294(+) T/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for APOM Gene

Variant ID Type Subtype PubMed ID
dgv10403n54 CNV loss 21841781
dgv10404n54 CNV loss 21841781
nsv1073969 CNV deletion 25765185
nsv1112900 CNV deletion 24896259
nsv1126749 CNV deletion 24896259
nsv1161370 CNV deletion 26073780
nsv462871 CNV loss 19166990
nsv601942 CNV loss 21841781
nsv830627 CNV loss 17160897

Variation tolerance for APOM Gene

Residual Variation Intolerance Score: 31% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.21; 24.36% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for APOM Gene

Human Gene Mutation Database (HGMD)
APOM
SNPedia medical, phenotypic, and genealogical associations of SNPs for
APOM

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for APOM Gene

Disorders for APOM Gene

MalaCards: The human disease database

(2) MalaCards diseases for APOM Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
fetal macrosomia
arcus corneae
  • corneal arcus
- elite association - COSMIC cancer census association via MalaCards
Search APOM in MalaCards View complete list of genes associated with diseases

Additional Disease Information for APOM

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with APOM: view

No data available for UniProtKB/Swiss-Prot and Genatlas for APOM Gene

Publications for APOM Gene

  1. Proposed lipocalin fold for apolipoprotein M based on bioinformatics and site-directed mutagenesis. (PMID: 11418126) Duan J … Villoutreix BO (FEBS letters 2001) 2 3 4 22 58
  2. A novel human apolipoprotein (apoM). (PMID: 10531326) Xu N … Dahlbäck B (The Journal of biological chemistry 1999) 2 3 4 22 58
  3. Apolipoprotein M promoter polymorphisms alter promoter activity and confer the susceptibility to the development of type 1 diabetes. (PMID: 19007767) Wu X … Liu Y (Clinical biochemistry 2009) 3 22 44 58
  4. Serendipitous fatty acid binding reveals the structural determinants for ligand recognition in apolipoprotein M. (PMID: 19733574) Sevvana M … Muller YA (Journal of molecular biology 2009) 3 4 22 58
  5. A genetic variant of apolipoprotein M increases susceptibility to coronary artery disease in a Chinese population. (PMID: 17973931) Xu WW … Fan LM (Clinical and experimental pharmacology & physiology 2008) 3 22 44 58

Products for APOM Gene

Sources for APOM Gene

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