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Aliases for MALAT1 Gene

Subcategory (RNA class) for MALAT1 Gene

non-coding RNA

Quality Score for this RNA gene is


Aliases for MALAT1 Gene

  • Metastasis Associated Lung Adenocarcinoma Transcript 1 (Non-Protein Coding) 2 3 5
  • Nuclear Paraspeckle Assembly Transcript 2 (Non-Protein Coding) 2 3
  • Long Intergenic Non-Protein Coding RNA 47 2 3
  • Nuclear Enriched Abundant Transcript 2 2 3
  • Hepcarcin 2 3
  • Metastasis Associated In Lung Adenocarcinoma Transcript 1 2
  • Non-Protein Coding RNA 47 2
  • NCRNA00047 3
  • LINC00047 3
  • PRO2853 3
  • NEAT2 3
  • HCN 3

External Ids for MALAT1 Gene

Previous GeneCards Identifiers for MALAT1 Gene

  • GC11P065032
  • GC11U900628
  • GC11P065266
  • GC11P061592

Summaries for MALAT1 Gene

Entrez Gene Summary for MALAT1 Gene

  • This gene produces a precursor transcript from which a long non-coding RNA is derived by RNase P cleavage of a tRNA-like small ncRNA (known as mascRNA) from its 3' end. The resultant mature transcript lacks a canonical poly(A) tail but is instead stabilized by a 3' triple helical structure. This transcript is retained in the nucleus where it is thought to form molecular scaffolds for ribonucleoprotein complexes. It may act as a transcriptional regulator for numerous genes, including some genes involved in cancer metastasis and cell migration, and it is involved in cell cycle regulation. Its upregulation in multiple cancerous tissues has been associated with the proliferation and metastasis of tumor cells. [provided by RefSeq, Mar 2015]

GeneCards Summary for MALAT1 Gene

MALAT1 (Metastasis Associated Lung Adenocarcinoma Transcript 1 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with MALAT1 include Undifferentiated Embryonal Sarcoma Of The Liver and Lung Cancer.

Gene Wiki entry for MALAT1 Gene

Additional gene information for MALAT1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MALAT1 Gene

Genomics for MALAT1 Gene

Regulatory Elements for MALAT1 Gene

Enhancers for MALAT1 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
GH11H065438 1.5 Ensembl ENCODE dbSUPER 12.4 -53.5 -53532 10.7 PKNOX1 YY1 TCF12 ZNF121 GLIS2 ZNF143 ZNF207 ATF7 RUNX3 PAF1 NEAT1 SF1 RELA VPS51 EIF1AD FRMD8 SLC25A45 ENSG00000255320 MALAT1 PCNX3
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around MALAT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for MALAT1 Gene

Genomic Locations for MALAT1 Gene
8,755 bases
Plus strand

Genomic View for MALAT1 Gene

Genes around MALAT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MALAT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MALAT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MALAT1 Gene

Proteins for MALAT1 Gene

Post-translational modifications for MALAT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for MALAT1 Gene

Domains & Families for MALAT1 Gene

Suggested Antigen Peptide Sequences for MALAT1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with MALAT1: view

No data available for Protein Domains and UniProtKB/Swiss-Prot for MALAT1 Gene

Function for MALAT1 Gene

Phenotypes From GWAS Catalog for MALAT1 Gene

Animal Model Products

miRNA for MALAT1 Gene

miRTarBase miRNAs that target MALAT1

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 MALAT1 Gene

Localization for MALAT1 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 MALAT1 gene
Compartment Confidence
plasma membrane 2
nucleus 2
extracellular 1
cytosol 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 MALAT1 Gene

Pathways & Interactions for MALAT1 Gene

SuperPathways for MALAT1 Gene

No Data Available

Interacting Proteins for MALAT1 Gene

Gene Ontology (GO) - Biological Process for MALAT1 Gene


No data available for Pathways by source and SIGNOR curated interactions for MALAT1 Gene

Drugs & Compounds for MALAT1 Gene

(1) Drugs for MALAT1 Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Platinum compounds Pharma 0
genes like me logo Genes that share compounds with MALAT1: view

Transcripts for MALAT1 Gene

mRNA/cDNA for MALAT1 Gene

(18) Additional mRNA sequences :
(17) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for MALAT1 Gene

Metastasis associated lung adenocarcinoma transcript 1 (non-protein coding):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for MALAT1 Gene

No ASD Table

Relevant External Links for MALAT1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MALAT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for MALAT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of MALAT1 Gene:


SOURCE GeneReport for Unigene cluster for MALAT1 Gene:


Evidence on tissue expression from TISSUES for MALAT1 Gene

  • Nervous system(2.2)
  • Heart(2)
genes like me logo Genes that share expression patterns with MALAT1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for MALAT1 Gene

Orthologs for MALAT1 Gene

Evolution for MALAT1 Gene

Gene Tree for MALAT1 (if available)
Gene Tree for MALAT1 (if available)

No data available for Orthologs for MALAT1 Gene

Paralogs for MALAT1 Gene

No data available for Paralogs for MALAT1 Gene

Variants for MALAT1 Gene

Sequence variations from dbSNP and Humsavar for MALAT1 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000379526 -- 65,499,088(+) GGGCA(A/G)GCGGA nc-transcript-variant
rs1000567968 -- 65,499,663(+) GTGGA(A/G)AACTG nc-transcript-variant
rs1000803626 -- 65,503,861(+) ACATG(A/G)CAATA nc-transcript-variant
rs1001077875 -- 65,504,195(+) CTCTT(-/C)CTTCT nc-transcript-variant, upstream-variant-2KB
rs1001130007 -- 65,504,084(+) TATAT(A/G)GGGAA nc-transcript-variant

Structural Variations from Database of Genomic Variants (DGV) for MALAT1 Gene

Variant ID Type Subtype PubMed ID
nsv825951 CNV gain 20364138
nsv820139 CNV loss 19587683
nsv555211 CNV loss 21841781
nsv555210 CNV gain 21841781
esv23728 CNV loss 19812545

Relevant External Links for MALAT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for MALAT1 Gene

Disorders for MALAT1 Gene

MalaCards: The human disease database

(5) MalaCards diseases for MALAT1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
undifferentiated embryonal sarcoma of the liver
  • embryonal sarcoma of the liver
lung cancer
  • lung cancer, protection against
embryonal sarcoma
  • undifferentiated sarcoma
endometrial stromal sarcoma
  • endometrial stromal sarcoma, high grade
  • xanthinuria, type i
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for MALAT1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with MALAT1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for MALAT1 Gene

Publications for MALAT1 Gene

  1. Disrupting MALAT1/miR-200c sponge decreases invasion and migration in endometrioid endometrial carcinoma. (PMID: 27693631) Li Q … Jiang Q (Cancer letters 2016) 2 3 60
  2. MALAT-1, a non protein-coding RNA is upregulated in the cerebellum, hippocampus and brain stem of human alcoholics. (PMID: 22560368) Kryger R … Jaquet V (Alcohol (Fayetteville, N.Y.) 2012) 2 3 60
  3. MALAT-1, a novel noncoding RNA, and thymosin beta4 predict metastasis and survival in early-stage non-small cell lung cancer. (PMID: 12970751) Ji P … Müller-Tidow C (Oncogene 2003) 2 3 60
  4. Functional polymorphism of lncRNA MALAT1 contributes to pulmonary arterial hypertension susceptibility in Chinese people. (PMID: 27362960) Zhuo Y … Cheng Y (Clinical chemistry and laboratory medicine 2017) 3 60
  5. MALAT1 Long Non-coding RNA Expression in Thyroid Tissues: Analysis by In Situ Hybridization and Real-Time PCR. (PMID: 27696303) Zhang R … Lloyd RV (Endocrine pathology 2017) 3 60

Products for MALAT1 Gene

Sources for MALAT1 Gene

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