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Aliases for PEMT Gene

Aliases for PEMT Gene

  • Phosphatidylethanolamine N-Methyltransferase 2 3 5
  • Phospholipid Methyltransferase 3 4
  • PEAMT 3 4
  • PEMPT 3 4
  • PEMT2 3 4
  • PLMT 3 4
  • PNMT 3 4
  • EC 4
  • EC 4

External Ids for PEMT Gene

Previous GeneCards Identifiers for PEMT Gene

  • GC17M017723
  • GC17M018781
  • GC17M017347
  • GC17M017609
  • GC17M017349
  • GC17M017161

Summaries for PEMT Gene

Entrez Gene Summary for PEMT Gene

  • Phosphatidylcholine (PC) is the most abundant mammalian phospholipid. This gene encodes an enzyme which converts phosphatidylethanolamine to phosphatidylcholine by sequential methylation in the liver. Another distinct synthetic pathway in nucleated cells converts intracellular choline to phosphatidylcholine by a three-step process. The protein isoforms encoded by this gene localize to the endoplasmic reticulum and mitochondria-associated membranes. Alternate splicing of this gene results in multiple transcript variants encoding different isoforms. [provided by RefSeq, May 2012]

GeneCards Summary for PEMT Gene

PEMT (Phosphatidylethanolamine N-Methyltransferase) is a Protein Coding gene. Diseases associated with PEMT include Choline Deficiency Disease and Whiplash. Among its related pathways are Metabolism and Acetylcholine Synthesis. Gene Ontology (GO) annotations related to this gene include N-methyltransferase activity and phosphatidylethanolamine N-methyltransferase activity.

UniProtKB/Swiss-Prot for PEMT Gene

  • Catalyzes the three sequential steps of the methylation pathway of phosphatidylcholine biosynthesis, the SAM-dependent methylation of phosphatidylethanolamine (PE) to phosphatidylmonomethylethanolamine (PMME), PMME to phosphatidyldimethylethanolamine (PDME), and PDME to phosphatidylcholine (PC).

Gene Wiki entry for PEMT Gene

Additional gene information for PEMT Gene

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

Genomics for PEMT Gene

GeneHancer (GH) Regulatory Elements for PEMT Gene

Promoters and enhancers for PEMT Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17I017590 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 562.6 -0.3 -261 3.7 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 PEMT ENSG00000264666 USP32P2 SMCR5 MPRIP DRG2 SMCR8 LOC644422 MPRIP-AS1 ENSG00000265511
GH17I017574 Promoter/Enhancer 1.2 EPDnew ENCODE dbSUPER 563.8 +15.5 15511 2.7 ZFHX2 GLIS1 ZIC2 EGR2 PEMT TOM1L2 GC17P017579 EEF1A1P43
GH17I017582 Promoter/Enhancer 1.2 EPDnew dbSUPER 550.4 +9.3 9279 0.1 TFAP4 MXI1 FOXA2 SAP130 ARID4B MAX RAD21 YY1 HNF4G NR2F6 PEMT MED9 RNU6-468P ENSG00000264666 EEF1A1P43
GH17I017535 Enhancer 2 VISTA FANTOM5 Ensembl ENCODE dbSUPER 15 +53.4 53446 5.2 PKNOX1 FOXA2 MLX ARID4B SIN3A FEZF1 ZNF48 YY1 TCF12 ZNF121 PEMT GC17M017544 PIR49850
GH17I017522 Enhancer 0.9 ENCODE dbSUPER 23.7 +68.4 68418 1.5 CTCF FEZF1 ZIC2 ZFHX2 GLIS2 PRDM10 ZBTB20 EGR2 MAZ ZNF398 PEMT RASD1 MED9 KRT16P6 GC17M017508 ENSG00000265511
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PEMT on UCSC Golden Path with GeneCards custom track

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

Genomic Locations for PEMT Gene

Genomic Locations for PEMT Gene
86,146 bases
Minus strand

Genomic View for PEMT Gene

Genes around PEMT on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for PEMT Gene

Proteins for PEMT Gene

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

    Protein Symbol:
    Recommended name:
    Phosphatidylethanolamine N-methyltransferase
    Protein Accession:
    Secondary Accessions:
    • A8MZ66
    • B4DY41
    • D3DXC3
    • Q6IAQ5
    • Q86VL3
    • Q9BW86
    • Q9UHY6
    • Q9Y6V9

    Protein attributes for PEMT Gene

    199 amino acids
    Molecular mass:
    22134 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAF14867.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for PEMT Gene


neXtProt entry for PEMT Gene

Post-translational modifications for PEMT Gene

No data available for DME Specific Peptides for PEMT Gene

Domains & Families for PEMT Gene

Gene Families for PEMT Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted membrane proteins

Protein Domains for PEMT Gene

Suggested Antigen Peptide Sequences for PEMT Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the class VI-like SAM-binding methyltransferase superfamily. PEMT/PEM2 methyltransferase family.
  • Belongs to the class VI-like SAM-binding methyltransferase superfamily. PEMT/PEM2 methyltransferase family.
genes like me logo Genes that share domains with PEMT: view

Function for PEMT Gene

Molecular function for PEMT Gene

GENATLAS Biochemistry:
phosphatidylethanolamine N-methyltransferase,converting phosphatidylethanolamine to phosphatidylcholine,involved in hepatocyte proliferation and liver cancer,with three isoforms differing from each other in the 5 region
UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + phosphatidyl-N-methylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-dimethylethanolamine.
UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + phosphatidyl-N-dimethylethanolamine = S-adenosyl-L-homocysteine + phosphatidylcholine.
UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + phosphatidylethanolamine = S-adenosyl-L-homocysteine + phosphatidyl-N-methylethanolamine.
UniProtKB/Swiss-Prot EnzymeRegulation:
The first methylation is rate-limiting.
UniProtKB/Swiss-Prot Function:
Catalyzes the three sequential steps of the methylation pathway of phosphatidylcholine biosynthesis, the SAM-dependent methylation of phosphatidylethanolamine (PE) to phosphatidylmonomethylethanolamine (PMME), PMME to phosphatidyldimethylethanolamine (PDME), and PDME to phosphatidylcholine (PC).

Enzyme Numbers (IUBMB) for PEMT Gene

Phenotypes From GWAS Catalog for PEMT Gene

Gene Ontology (GO) - Molecular Function for PEMT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000773 phosphatidyl-N-methylethanolamine N-methyltransferase activity IEA --
GO:0004608 phosphatidylethanolamine N-methyltransferase activity TAS --
GO:0008168 methyltransferase activity IEA --
GO:0008170 N-methyltransferase activity IEA --
GO:0008429 phosphatidylethanolamine binding IEA --
genes like me logo Genes that share ontologies with PEMT: view
genes like me logo Genes that share phenotypes with PEMT: view

Animal Models for PEMT Gene

MGI Knock Outs for PEMT:

Animal Model Products

  • Taconic Biosciences Mouse Models for PEMT

miRNA for PEMT Gene

miRTarBase miRNAs that target PEMT

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PEMT Gene

Localization for PEMT Gene

Subcellular locations from UniProtKB/Swiss-Prot for PEMT Gene

Isoform 1: Endoplasmic reticulum membrane; Multi-pass membrane protein. Mitochondrion membrane; Multi-pass membrane protein. Note=Found in endoplasmic reticulum where most PEMT activity is generated and in mitochondria. {ECO:0000250}.
Isoform 2: Endoplasmic reticulum membrane; Multi-pass membrane protein.

Subcellular locations from

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 PEMT gene
Compartment Confidence
endoplasmic reticulum 5
plasma membrane 4
mitochondrion 4
cytosol 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for PEMT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion IEA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PEMT: view

Pathways & Interactions for PEMT Gene

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

UniProtKB/Swiss-Prot Q9UBM1-PEMT_HUMAN

  • Pathway: Phospholipid metabolism; phosphatidylcholine biosynthesis.

Gene Ontology (GO) - Biological Process for PEMT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process TAS 9989271
GO:0006644 phospholipid metabolic process IEA --
GO:0006650 glycerophospholipid metabolic process IEA --
GO:0006656 phosphatidylcholine biosynthetic process TAS,IBA --
GO:0006686 sphingomyelin biosynthetic process IEA --
genes like me logo Genes that share ontologies with PEMT: view

No data available for SIGNOR curated interactions for PEMT Gene

Drugs & Compounds for PEMT Gene

(8) Drugs for PEMT Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphatidylethanolamine Experimental Pharma 0
s-adenosylhomocysteine Experimental Pharma 0

(10) Additional Compounds for PEMT Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • (3S)-5'-[(3-amino-3-carboxypropyl)methylsulfonio]-5'-deoxyadenosine
  • 2-S-Adenosyl-L-methionine
  • 5'-Deoxyadenosine-5'-L-methionine disulfate ditosylate
  • 5'-Deoxyadenosine-5'-L-methionine disulphate ditosylate
  • Active methionine
  • (2-acetyloxy-3-octadec-9-enoxypropyl) 2-trimethylazaniumylethyl phosphate
  • 2-Acetyl-1-(9Z-octadecenyl)-sn-glycero-3-phosphocholine
  • PC(O-18:1(9Z)/2:0)
Phosphatidylcholines Group A
  • (Z,Z)-(1)-(7-Oleoyl-4-oxido-10-oxo-3,5,9-trioxa-4-phosphaheptacos-18-enyl)trimethylammonium 4-oxide
  • (Z,Z)-4-hydroxy-N,N,N-trimethyl-10-oxo-7-[(1-oxo-9-octadecenyl)oxy]-3,5,9-Trioxa-4-phosphaheptacos-18-en-1-aminium 4-oxide hydroxide inner salt
  • 1,2-Dioleoyl-rac-glycero-3-phosphocholine
  • 1,2-Dioleoylglycerol-3-phosphorylcholine
  • 1,2-Dioleoylglyceryl-3-phosphorylcholine
Phosphatidylcholines Group B
  • 1-(1-Enyl-palmitoyl)-2-eicosenoyl-sn-glycero-3-phosphocholine
  • GPCho(16:0/20:1)
  • GPCho(16:0/20:1n9)
  • GPCho(16:0/20:1w9)
  • GPCho(36:1)
Phosphatidylethanolamines Group A
  • 1-(1-Enyl-stearoyl)-2-arachidonoyl-sn-glycero-3-phosphoethanolamine
  • 1-(1Z-Octadecenyl)-2-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-sn-glycero-3-phosphoethanolamine
  • 1-Alkenyl-2-acyl-glycerophosphoethanolamine
  • GPEtn(18:0/20:4)
  • GPEtn(18:0/20:4n6)
genes like me logo Genes that share compounds with PEMT: view

Transcripts for PEMT Gene

Unigene Clusters for PEMT Gene

Phosphatidylethanolamine N-methyltransferase:
Representative Sequences:

Clone Products

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

No ASD Table

Relevant External Links for PEMT Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PEMT Gene

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

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

This gene is overexpressed in Liver (x7.7).

Protein differential expression in normal tissues from HIPED for PEMT Gene

This gene is overexpressed in Liver (30.4), Ovary (12.6), Retina (7.0), and Fetal ovary (6.4).

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

Protein tissue co-expression partners for PEMT Gene

NURSA nuclear receptor signaling pathways regulating expression of PEMT Gene:


SOURCE GeneReport for Unigene cluster for PEMT Gene:


Evidence on tissue expression from TISSUES for PEMT Gene

  • Liver(4.6)
  • Nervous system(4.4)
  • Skin(4.2)
genes like me logo Genes that share expression patterns with PEMT: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PEMT Gene

Orthologs for PEMT Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for PEMT Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PEMT 33 34
  • 98.87 (n)
(Canis familiaris)
Mammalia PEMT 33 34
  • 86.31 (n)
(Bos Taurus)
Mammalia PEMT 33 34
  • 84.42 (n)
(Rattus norvegicus)
Mammalia Pemt 33
  • 82.58 (n)
(Mus musculus)
Mammalia Pemt 33 16 34
  • 81.07 (n)
(Monodelphis domestica)
Mammalia PEMT 34
  • 73 (a)
(Ornithorhynchus anatinus)
Mammalia PEMT 34
  • 64 (a)
(Gallus gallus)
Aves PEMT 33 34
  • 70.11 (n)
(Anolis carolinensis)
Reptilia PEMT 34
  • 61 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia pemt 33
  • 62.29 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16016 33
(Danio rerio)
Actinopterygii pemt 33 34
  • 62.6 (n)
zgc55479 33
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR431C 33
  • 53.37 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes OPI3 33 34 36
  • 51.37 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0B14234g 33
  • 49.63 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU04699 33
  • 55.78 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes cho1 33
  • 45.15 (n)
Species where no ortholog for PEMT was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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 PEMT Gene

Gene Tree for PEMT (if available)
Gene Tree for PEMT (if available)

Paralogs for PEMT Gene

No data available for Paralogs for PEMT Gene

Variants for PEMT Gene

Sequence variations from dbSNP and Humsavar for PEMT Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000047498 -- 17,582,322(-) A/T 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant
rs1000062010 -- 17,518,180(-) C/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000134939 -- 17,553,676(-) C/G genic_upstream_transcript_variant, intron_variant
rs1000142868 -- 17,576,551(-) G/A genic_upstream_transcript_variant, intron_variant
rs1000145412 -- 17,592,031(-) T/C upstream_transcript_variant

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

Variant ID Type Subtype PubMed ID
nsv1070394 CNV deletion 25765185
nsv1160458 CNV duplication 26073780
nsv155 OTHER inversion 15895083
nsv470579 CNV loss 18288195
nsv475981 CNV novel sequence insertion 20440878
nsv476636 CNV novel sequence insertion 20440878
nsv499114 OTHER inversion 21111241
nsv523094 CNV loss 19592680
nsv524158 CNV loss 19592680
nsv574524 CNV loss 21841781
nsv574525 CNV loss 21841781
nsv574526 CNV loss 21841781
nsv833383 CNV loss 17160897
nsv833384 CNV loss 17160897
nsv960427 CNV duplication 23825009

Variation tolerance for PEMT Gene

Residual Variation Intolerance Score: 76.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.89; 83.76% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PEMT Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for PEMT Gene

MalaCards: The human disease database

(3) MalaCards diseases for PEMT Gene - From: HGMD, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
choline deficiency disease
  • choline deficiency
neuronal ceroid lipofuscinosis
  • batten disease
- elite association - COSMIC cancer census association via MalaCards
Search PEMT in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PEMT

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

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

Publications for PEMT Gene

  1. Identification of three novel cDNAs for human phosphatidylethanolamine N-methyltransferase and localization of the human gene on chromosome 17p11.2. (PMID: 9989271) Walkey CJ … Vance DE (Biochimica et biophysica acta 1999) 2 3 4 22 58
  2. Genome-wide association study of biochemical traits in Korcula Island, Croatia. (PMID: 19260141) Zemunik T … Rudan I (Croatian medical journal 2009) 3 22 44 58
  3. Genetic variants in phosphatidylethanolamine N-methyltransferase and methylenetetrahydrofolate dehydrogenase influence biomarkers of choline metabolism when folate intake is restricted. (PMID: 19167960) Ivanov A … Caudill MA (Journal of the American Dietetic Association 2009) 3 22 44 58
  4. Polymorphisms of microsomal triglyceride transfer protein gene and phosphatidylethanolamine N-methyltransferase gene in alcoholic and nonalcoholic fatty liver disease in Koreans. (PMID: 19262398) Jun DW … Chae JD (European journal of gastroenterology & hepatology 2009) 3 22 44 58
  5. Phosphatidylethanolamine N-methyltransferase (PEMT) gene expression is induced by estrogen in human and mouse primary hepatocytes. (PMID: 17456783) Resseguie M … Zeisel SH (FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2007) 3 4 22 58

Products for PEMT Gene