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Aliases for NEAT1 Gene

Subcategory (RNA class) for NEAT1 Gene

non-coding RNA

Quality Score for this RNA gene is

3

Aliases for NEAT1 Gene

  • Nuclear Paraspeckle Assembly Transcript 1 (Non-Protein Coding) 2 3 5
  • Long Intergenic Non-Protein Coding RNA 84 2 3
  • Nuclear Enriched Abundant Transcript 1 2 3
  • Virus Inducible Non-Coding RNA 2 3
  • Trophoblast Derived Non-Protein Coding RNA 2
  • Trophoblast MHC Class II Suppressor 3
  • Trophoblast-Derived Noncoding RNA 3
  • Non-Protein Coding RNA 84 2
  • MENepsilon/Beta 3
  • NCRNA00084 3
  • LINC00084 3
  • TncRNA 3
  • VINC 3

External Ids for NEAT1 Gene

Previous HGNC Symbols for NEAT1 Gene

  • NCRNA00084

Previous GeneCards Identifiers for NEAT1 Gene

  • GC11U901304
  • GC11P065190
  • GC11P065438
  • GC11P065457
  • GC11P065471
  • GC11P065478
  • GC11P065490
  • GC11P065501

Summaries for NEAT1 Gene

Entrez Gene Summary for NEAT1 Gene

  • This gene produces a long non-coding RNA (lncRNA) transcribed from the multiple endocrine neoplasia locus. This lncRNA is retained in the nucleus where it forms the core structural component of the paraspeckle sub-organelles. It may act as a transcriptional regulator for numerous genes, including some genes involved in cancer progression. [provided by RefSeq, Mar 2015]

GeneCards Summary for NEAT1 Gene

NEAT1 (Nuclear Paraspeckle Assembly Transcript 1 (Non-Protein Coding)) is an RNA Gene, and is affiliated with the non-coding RNA class.

Gene Wiki entry for NEAT1 Gene

Additional gene information for NEAT1 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NEAT1 Gene

Genomics for NEAT1 Gene

Regulatory Elements for NEAT1 Gene

Enhancers for NEAT1 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
GH11H065470 2.7 VISTA FANTOM5 Ensembl ENCODE dbSUPER 55.6 +67.3 67310 39 MLX ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 SP3 MCM3 SF1 ZFPL1 POLA2 LOC105369352 SART1 PCNX3 EIF1AD KAT5 SF3B2 MUS81
GH11H065414 2.2 FANTOM5 Ensembl ENCODE dbSUPER 61.9 +1.4 1408 18 MLX ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 SP3 MEF2D SF1 LOC105369352 ZFPL1 KAT5 SART1 MUS81 EIF1AD PCNX3 POLA2 SF3B2
GH11H065402 1.3 Ensembl ENCODE dbSUPER 40.3 -18.7 -18743 2 SOX13 KLF1 TAL1 MAX CEBPG ZKSCAN1 RARA TCF12 CTBP1 POLR2A NEAT1 PYGM CDC42BPG GC11P065418 FRMD8
GH11H065438 1.5 Ensembl ENCODE dbSUPER 28.5 +21.5 21457 10 PKNOX1 YY1 TCF12 ZNF121 GLIS2 ZNF143 ZNF207 ATF7 RUNX3 PAF1 NEAT1 SF1 RELA VPS51 EIF1AD FRMD8 SLC25A45 ENSG00000255320 MALAT1 PCNX3
GH11H065377 2 FANTOM5 Ensembl ENCODE dbSUPER 18.9 -40.3 -40293 10 MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC MEF2D SSRP1 NEAT1 SF1 SART1 LOC728975 KAT5 SF3B2 MAP3K11 CD248 SLC22A20 DPF2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around NEAT1 on UCSC Golden Path with GeneCards custom track

Promoters for NEAT1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000264457 1826 6801 MLX ZFP64 YBX1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 MEF2D

Genomic Location for NEAT1 Gene

Chromosome:
11
Start:
65,422,774 bp from pter
End:
65,445,540 bp from pter
Size:
22,767 bases
Orientation:
Plus strand

Genomic View for NEAT1 Gene

Genes around NEAT1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NEAT1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NEAT1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NEAT1 Gene

Proteins for NEAT1 Gene

Post-translational modifications for NEAT1 Gene

No Post-translational modifications

No data available for DME Specific Peptides for NEAT1 Gene

Domains & Families for NEAT1 Gene

Gene Families for NEAT1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with NEAT1: view

No data available for Protein Domains , Suggested Antigen Peptide Sequences and UniProtKB/Swiss-Prot for NEAT1 Gene

Function for NEAT1 Gene

Phenotypes From GWAS Catalog for NEAT1 Gene

Animal Model Products

CRISPR Products

Clone Products

  • Addgene plasmids for NEAT1
  • Applied Biological Materials Clones for NEAT1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Molecular function , Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for NEAT1 Gene

Localization for NEAT1 Gene

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 NEAT1 gene
Compartment Confidence
nucleus 2

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 NEAT1 Gene

Pathways & Interactions for NEAT1 Gene

SuperPathways for NEAT1 Gene

No Data Available

Interacting Proteins for NEAT1 Gene

Gene Ontology (GO) - Biological Process for NEAT1 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for NEAT1 Gene

Drugs & Compounds for NEAT1 Gene

No Compound Related Data Available

Transcripts for NEAT1 Gene

mRNA/cDNA for NEAT1 Gene

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

Unigene Clusters for NEAT1 Gene

Nuclear paraspeckle assembly transcript 1 (non-protein coding):
Representative Sequences:

CRISPR Products

Clone Products

  • Addgene plasmids for NEAT1
  • Applied Biological Materials Clones for NEAT1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for NEAT1 Gene

No ASD Table

Relevant External Links for NEAT1 Gene

GeneLoc Exon Structure for
NEAT1
ECgene alternative splicing isoforms for
NEAT1

Expression for NEAT1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for NEAT1 Gene

NURSA nuclear receptor signaling pathways regulating expression of NEAT1 Gene:

NEAT1

SOURCE GeneReport for Unigene cluster for NEAT1 Gene:

Hs.523789
genes like me logo Genes that share expression patterns with NEAT1: view

Primer Products

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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for NEAT1 Gene

Orthologs for NEAT1 Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for NEAT1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ptr-mir-612 34
  • 100 (a)
OneToOne
Species where no ortholog for NEAT1 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)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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 NEAT1 Gene

ENSEMBL:
Gene Tree for NEAT1 (if available)
TreeFam:
Gene Tree for NEAT1 (if available)

Paralogs for NEAT1 Gene

No data available for Paralogs for NEAT1 Gene

Variants for NEAT1 Gene

Sequence variations from dbSNP and Humsavar for NEAT1 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000725681 -- 65,441,914(+) TGTGA(A/G)GCAGT nc-transcript-variant
rs1000833787 -- 65,428,851(+) GTTTA(C/T)TGTAA nc-transcript-variant
rs1000889900 -- 65,429,742(+) TCCAC(C/T)CCAAG nc-transcript-variant
rs1000995374 -- 65,424,017(+) AGTGT(A/G)AGTCC nc-transcript-variant, upstream-variant-2KB
rs1001200330 -- 65,436,570(+) GTTTC(G/T)TTCCA nc-transcript-variant

Structural Variations from Database of Genomic Variants (DGV) for NEAT1 Gene

Variant ID Type Subtype PubMed ID
esv2422285 CNV deletion 17116639
esv3626673 CNV loss 21293372
nsv526181 CNV gain 19592680
nsv951016 CNV deletion 24416366

Relevant External Links for NEAT1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NEAT1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for NEAT1 Gene

Disorders for NEAT1 Gene

Relevant External Links for NEAT1

Genetic Association Database (GAD)
NEAT1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
NEAT1

No disorders were found for NEAT1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NEAT1 Gene

Publications for NEAT1 Gene

  1. Human trophoblast noncoding RNA suppresses CIITA promoter III activity in murine B-lymphocytes. (PMID: 12565840) Geirsson A … Hammond GL (Biochemical and biophysical research communications 2003) 2 3 60
  2. Repression of major histocompatibility complex genes by a human trophoblast ribonucleic acid. (PMID: 9858482) Peyman JA (Biology of reproduction 1999) 2 3 60
  3. A transcript map for the 2.8-Mb region containing the multiple endocrine neoplasia type 1 locus. (PMID: 9253601) Guru SC … Chandrasekharappa SC (Genome research 1997) 2 3 60
  4. Long non-coding RNA NEAT1 promotes hepatocellular carcinoma cell proliferation through the regulation of miR-129-5p-VCP-IκB. (PMID: 28526689) Fang L … Huang P (American journal of physiology. Gastrointestinal and liver physiology 2017) 3 60
  5. Whole-genome analysis of papillary kidney cancer finds significant noncoding alterations. (PMID: 28358873) Li S … Gerstein MB (PLoS genetics 2017) 3 60

Products for NEAT1 Gene

Sources for NEAT1 Gene

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