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Aliases for MEG3 Gene

Subcategory (RNA class) for MEG3 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for MEG3 Gene

  • Maternally Expressed 3 (Non-Protein Coding) 2 3 5
  • Long Intergenic Non-Protein Coding RNA 23 2 3
  • Very Putative Protein From MEG3 Locus 3
  • Non-Protein Coding RNA 23 2
  • Maternally Expressed 3 2
  • Onco-LncRNA-83 3
  • NCRNA00023 3
  • LINC00023 3
  • PRO0518 3
  • PRO2160 3
  • Prebp1 3
  • FP504 3
  • GTL2 3

External Ids for MEG3 Gene

Previous GeneCards Identifiers for MEG3 Gene

  • GC14P098688
  • GC14P095112
  • GC14P099282
  • GC14P099287
  • GC14P099285
  • GC14P100363
  • GC14P100364
  • GC14P100368
  • GC14P100371
  • GC14P100373
  • GC14P101292
  • GC14P081473
  • GC14P101245
  • GC14P101214
  • GC14P101795
  • GC14P102088
  • GC14P102322
  • GC14P102493
  • GC14P102668
  • GC14P102840

Summaries for MEG3 Gene

Entrez Gene Summary for MEG3 Gene

  • This gene is a maternally expressed imprinted gene. Multiple alternatively spliced transcript variants have been transcribed from this gene and all of them are long non-coding RNAs (lncRNAs). This gene is expressed in many normal tissues, but its expression is lost in multiple cancer cell lines of various tissue origins. It inhibits tumor cell proliferation in vitro. It also interacts with the tumor suppressor p53, and regulates p53 target gene expression. Its deletion enhances angiogenesis in vivo. Many experimental evidences demonstrate that this gene is a lncRNA tumor suppressor. [provided by RefSeq, Mar 2012]

GeneCards Summary for MEG3 Gene

MEG3 (Maternally Expressed 3 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with MEG3 include Kagami-Ogata Syndrome and Temple Syndrome. Among its related pathways are LncRNA-mediated mechanisms of therapeutic resistance.

Gene Wiki entry for MEG3 Gene

Additional gene information for MEG3 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MEG3 Gene

Genomics for MEG3 Gene

GeneHancer (GH) Regulatory Elements for MEG3 Gene

Promoters and enhancers for MEG3 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
GH14I100707 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 16.5 -69.1 -69101 4.8 CTCF ESRRA CLOCK FOXA2 MAX BACH1 ZNF48 RAD21 POLR2A SCRT2 LOC105370669 MEG3 MIR770 PIR37335 GC14P103258
GH14I100819 Promoter/Enhancer 2 FANTOM5 Ensembl ENCODE dbSUPER 11.3 +47.1 47126 13.4 ELF3 PKNOX1 FOXA2 ZSCAN4 NFXL1 ZNF48 RAD21 RFX5 ZNF280A SLC30A9 ENSG00000274884 DLK1 MEG3 MIR493 MIR337 MIR431 RTL1 MIR127 MIR136 MIR433
GH14I100475 Enhancer 1.4 Ensembl ENCODE dbSUPER 9.3 -302.7 -302663 3.4 PKNOX1 FOXA2 MLX ARNT ARID4B FEZF1 ZNF2 FOS SP5 SMARCB1 BEGAIN MEG3 DLK1 HMGN1P25 GC14M100431 LOC105370664 WDR25
GH14I100639 Enhancer 1.1 Ensembl ENCODE dbSUPER 10 -139.1 -139053 1.5 MAX ZNF316 POLR2A NFE2 IKZF2 RUNX3 MAFK ZNF687 RNF2 L3MBTL2 BEGAIN WDR25 WARS MEG3 PIR56329 ENSG00000258576
GH14I100833 Enhancer 0.9 ENCODE dbSUPER 11.5 +59.4 59385 10.6 BCOR ESRRA FOXA2 ZBTB21 ZMYM3 ZIC2 TEAD3 ZFHX2 SCRT2 FOSL2 MEG3 MIR493 MIR337 MIR433 MIR431 MIR127 RTL1 MIR136 SNORD112 MIR370
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around MEG3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the MEG3 gene promoter:

Genomic Locations for MEG3 Gene

Genomic Locations for MEG3 Gene
81,622 bases
Plus strand

Genomic View for MEG3 Gene

Genes around MEG3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MEG3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MEG3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MEG3 Gene

Proteins for MEG3 Gene

Post-translational modifications for MEG3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for MEG3 Gene

Domains & Families for MEG3 Gene

Gene Families for MEG3 Gene

Suggested Antigen Peptide Sequences for MEG3 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with MEG3: view

No data available for Protein Domains and UniProtKB/Swiss-Prot for MEG3 Gene

Function for MEG3 Gene

Phenotypes From GWAS Catalog for MEG3 Gene

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for MEG3 Gene

Localization for MEG3 Gene

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 MEG3 gene
Compartment Confidence
nucleus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for MEG3 Gene

Pathways & Interactions for MEG3 Gene

genes like me logo Genes that share pathways with MEG3: view

Pathways by source for MEG3 Gene

1 BioSystems pathway for MEG3 Gene

Interacting Proteins for MEG3 Gene

Gene Ontology (GO) - Biological Process for MEG3 Gene


No data available for SIGNOR curated interactions for MEG3 Gene

Drugs & Compounds for MEG3 Gene

No Compound Related Data Available

Transcripts for MEG3 Gene

Unigene Clusters for MEG3 Gene

Maternally expressed 3 (non-protein coding):
Representative Sequences:

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for MEG3 Gene

No ASD Table

Relevant External Links for MEG3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MEG3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for MEG3 Gene

mRNA differential expression in normal tissues according to GTEx for MEG3 Gene

This gene is overexpressed in Pituitary (x7.7), Brain - Cerebellum (x4.6), and Brain - Cerebellar Hemisphere (x4.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from MOPED for MEG3 Gene

NURSA nuclear receptor signaling pathways regulating expression of MEG3 Gene:


SOURCE GeneReport for Unigene cluster for MEG3 Gene:

genes like me logo Genes that share expression patterns with MEG3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for MEG3 Gene

Orthologs for MEG3 Gene

This gene was present in the common ancestor of mammals.

Orthologs for MEG3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SNORD112 34
  • 99 (a)
(Canis familiaris)
Mammalia SNORD112 34
  • 81 (a)
(Bos Taurus)
Mammalia SNORD112 34
  • 60 (a)
Species where no ortholog for MEG3 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for MEG3 Gene

Gene Tree for MEG3 (if available)
Gene Tree for MEG3 (if available)

Paralogs for MEG3 Gene

No data available for Paralogs for MEG3 Gene

Variants for MEG3 Gene

Sequence variations from dbSNP and Humsavar for MEG3 Gene

SNP ID Clin Chr 14 pos Variation AA Info Type
rs1000004293 -- 100,855,781(+) G/A genic_downstream_transcript_variant, intron_variant
rs1000069088 -- 100,825,398(+) C/T upstream_transcript_variant
rs1000080532 -- 100,849,316(+) T/G intron_variant, non_coding_transcript_variant
rs1000098373 -- 100,860,945(+) G/A genic_downstream_transcript_variant, non_coding_transcript_variant
rs1000133179 -- 100,849,577(+) A/G intron_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for MEG3 Gene

Variant ID Type Subtype PubMed ID
esv2751158 CNV gain 17911159
esv3635516 CNV gain 21293372
esv3635518 CNV gain 21293372
nsv470669 CNV loss 18288195
nsv483116 CNV gain 15286789
nsv509549 CNV insertion 20534489
nsv827055 CNV gain 20364138
nsv832876 CNV loss 17160897

Additional Variant Information for MEG3 Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for MEG3 Gene

Disorders for MEG3 Gene

MalaCards: The human disease database

(3) MalaCards diseases for MEG3 Gene - From: HGMD, ClinVar, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
kagami-ogata syndrome
  • kos
temple syndrome
  • uniparental disomy, maternal, chromosome 14
silver-russell syndrome
  • srs
- elite association - COSMIC cancer census association via MalaCards
Search MEG3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for MEG3

genes like me logo Genes that share disorders with MEG3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for MEG3 Gene

Publications for MEG3 Gene

  1. Identification of an imprinted gene, Meg3/Gtl2 and its human homologue MEG3, first mapped on mouse distal chromosome 12 and human chromosome 14q. (PMID: 10759892) Miyoshi N … Ishino F (Genes to cells : devoted to molecular & cellular mechanisms 2000) 2 3 22 58
  2. Long non-coding RNA MEG3 inhibits the proliferation of cervical carcinoma cells through the induction of cell cycle arrest and apoptosis. (PMID: 23790166) Qin R … Guo F (Neoplasma 2013) 2 3 58
  3. The imprinted DLK1-MEG3 gene region on chromosome 14q32.2 alters susceptibility to type 1 diabetes. (PMID: 19966805) Wallace C … Clayton DG (Nature genetics 2010) 3 44 58
  4. Deletions and epimutations affecting the human 14q32.2 imprinted region in individuals with paternal and maternal upd(14)-like phenotypes. (PMID: 18176563) Kagami M … Ogata T (Nature genetics 2008) 3 22 58
  5. Hypermethylation of the promoter region is associated with the loss of MEG3 gene expression in human pituitary tumors. (PMID: 15644399) Zhao J … Klibanski A (The Journal of clinical endocrinology and metabolism 2005) 3 22 58

Products for MEG3 Gene

Sources for MEG3 Gene

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