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APOM Gene(Protein Coding)

Apolipoprotein M

GCID:
GC06P031901
GIFtS:
57
Genes Participants
UDN Logo

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

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. Among its related pathways are Metabolism of fat-soluble vitamins and Signaling by GPCR. 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

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

Genomics for APOM Gene

Products:

  1. Regulatory Element

Regulatory Elements for APOM Gene

Enhancers for APOM Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06G031567 2.1 FANTOM5 Ensembl ENCODE dbSUPER 11.1 -74.0 -73992 22.2 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YBX1 YY1 SLC30A9 ZNF143 DDX39B TNF LY6G5B LSM2 DHX16 ATF6B TCF19 PPP1R10 VARS CSNK2B
GH06G031614 1.1 Ensembl ENCODE 11.4 -36.6 -36576 3.7 HDAC1 ELF3 HDGF TBP ZNF121 RELB ETV6 IKZF2 CREM TBX21 BAG6 LY6G5B HLA-DRB1 SKIV2L LY6G5C LST1 LTB C4A DDX39B-AS1 DDX39B
GH06G031650 1.2 ENCODE 0.7 +0.1 56 3.3 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YBX1 YY1 SLC30A9 ZNF143 LY6G5B BAG6 LY6G5C DDX39B ATF6B DHX16 NFKBIL1 LSM2 GTF2H4 SKIV2L
GH06G031654 1 ENCODE 0.7 +3.0 2957 1.8 HNRNPUL1 FOXA2 ATF1 MLX ZFP64 ARID4B DMAP1 ZNF48 YY1 SLC30A9 BAG6 CLIC1 MICB LY6G5B LOC101929072 APOM C6orf47-AS1
GH06G031657 0.7 ENCODE 0.4 +5.2 5221 0.6 PKNOX1 KLF1 ATF1 ZBTB21 RBBP5 ZNF600 PRDM10 ZBTB10 NCOA1 ZNF398 LY6G5B C6orf47-AS1 APOM
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around APOM on UCSC Golden Path with GeneCards custom track

Promoters for APOM Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000195574 190 2001 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YY1 SLC30A9 ZNF143 ZNF263

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

Genomic Location for APOM Gene

Chromosome:
6
Start:
31,652,410 bp from pter
End:
31,658,210 bp from pter
Size:
5,801 bases
Orientation:
Plus strand

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 Structure • Gene Density

RefSeq DNA sequence for APOM Gene

Proteins for APOM Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • 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:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for APOM Gene

    Alternative splice isoforms for APOM Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for APOM Gene

Protein Expression for APOM Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for APOM Gene

  • Glycosylation at posLast=135135
  • Modification sites at PhosphoSitePlus

Other Protein References for APOM Gene

ENSEMBL proteins:
REFSEQ proteins:

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:

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

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

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.

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 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:

Animal Model Products

  • Taconic Biosciences Mouse Models for APOM

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , 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

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

1 Cell Signaling Technology pathway 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 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

Products:

  1. Drug

(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

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for APOM Gene

(3) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(132) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for APOM Gene

Apolipoprotein M:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

Products:

  1. Primer

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

mRNA expression in normal human tissues for APOM Gene
mRNA expression by BioGPS for APOM GenemRNA expression by GTEx 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

Primer Products

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 34 35
  • 99.29 (n)
cow
(Bos Taurus)
 Mammalia APOM 34 35
  • 91.13 (n)
dog
(Canis familiaris)
 Mammalia APOM 34 35
  • 89.18 (n)
mouse
(Mus musculus)
 Mammalia Apom 34 16 35
  • 84.4 (n)
rat
(Rattus norvegicus)
 Mammalia Apom 34
  • 83.51 (n)
oppossum
(Monodelphis domestica)
 Mammalia APOM 35
  • 77 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 35
  • 56 (a)
 OneToMany
-- 35
  • 42 (a)
 OneToMany
lizard
(Anolis carolinensis)
 Reptilia APOM 35
  • 45 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia apom 34
  • 53.48 (n)
zebrafish
(Danio rerio)
 Actinopterygii apom 35
  • 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 Sequence Context AA Info Type
rs1000107232 -- 31,653,962(+) TAGCT(G/T)TTTAT intron-variant, upstream-variant-2KB
rs1001164231 -- 31,652,319(+) CAGCC(A/C)AACAC intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1001492417 -- 31,652,661(+) GCGTG(A/C)GTCGC intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1001781736 -- 31,655,079(+) TGGGA(C/T)TACAG intron-variant, upstream-variant-2KB
rs1002778502 -- 31,654,294(+) CAGTA(C/T)TAATA intron-variant, upstream-variant-2KB

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)

Relevant External Links 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

(1) MalaCards diseases for APOM Gene - From: GeneCards

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

Relevant External Links for APOM

Genetic Association Database (GAD)
APOM
Human Genome Epidemiology (HuGE) Navigator
APOM
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
APOM
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 B.O. (FEBS Lett. 2001) 2 3 4 22 64
  2. A novel human apolipoprotein (apoM). (PMID: 10531326) Xu N. … Dahlbaeck B. (J. Biol. Chem. 1999) 2 3 4 22 64
  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. (Clin. Biochem. 2009) 3 22 46 64
  4. Serendipitous fatty acid binding reveals the structural determinants for ligand recognition in apolipoprotein M. (PMID: 19733574) Sevvana M. … Muller Y.A. (J. Mol. Biol. 2009) 3 4 22 64
  5. Apolipoprotein M associates to lipoproteins through its retained signal peptide. (PMID: 18279674) Axler O. … Dahlback B. (FEBS Lett. 2008) 3 4 22 64

Products for APOM Gene

Sources for APOM Gene

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