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NEAT1 Gene(RNA Gene)

Nuclear Paraspeckle Assembly Transcript 1

GCID:
GC11P065531
GIFtS:
22
Genes Participants
UDN Logo

Aliases for NEAT1 Gene

Subcategory (RNA class) for NEAT1 Gene

non-coding RNA

Quality Score for this RNA gene is

13

Aliases for NEAT1 Gene

  • Nuclear Paraspeckle Assembly Transcript 1 2 3
  • 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
  • GC11P065512
  • GC11P065521

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) is an RNA Gene, and is affiliated with the non-coding RNA class. Diseases associated with NEAT1 include Relapsing-Remitting Multiple Sclerosis and Dengue Disease.

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

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for NEAT1 Gene

Promoters and enhancers for NEAT1 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH11J065414 Promoter/Enhancer 2.4 FANTOM5 Ensembl ENCODE dbSUPER 730.9 +1.4 1407 18.8 CLOCK MLX ZFP64 FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 NEAT1 ENSG00000278050 ENSG00000277599 GC11P065538 ENSG00000278144 SF1 LOC105369352 ZFPL1 POLA2 EIF1AD
GH11J065470 Promoter/Enhancer 2.9 VISTA FANTOM5 Ensembl ENCODE dbSUPER 74.6 +67.3 67310 40 CLOCK MLX ZFP64 FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 LOC105369346 SF1 POLA2 PCNX3 ZFPL1 EIF1AD SART1 LOC105369352 MUS81 KAT5
GH11J065377 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 28 -40.3 -40292 10.3 MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 ZNF143 ZNF263 SP3 FRMD8 SLC25A45 SF1 PCNX3 MUS81 POLA2 SART1 ZFPL1 ENSG00000255320 EIF1AD
GH11J065567 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 28.8 +150.9 150900 12 MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 SSSCA1 EHBP1L1 FAM89B SF1 POLA2 LOC105369352 PCNX3 EIF1AD KAT5 MUS81
GH11J066342 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 20.1 +925.8 925771 11.8 MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 LOC102724064 B4GAT1 TRS-GCT3-1 RBM14 ENSG00000258297 LOC105369352 RBM4 EIF1AD RIN1 ENSG00000255320
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NEAT1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for NEAT1 Gene

Genomic Locations for NEAT1 Gene
chr11:65,422,774-65,445,540
(GRCh38/hg38)
Size:
22,767 bases
Orientation:
Plus strand
chr11:65,190,245-65,213,011
(GRCh37/hg19)
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 Structure • Gene Density

RefSeq DNA sequence for NEAT1 Gene

Proteins for NEAT1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

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

HGNC:

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

Products:

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

Phenotypes From GWAS Catalog for NEAT1 Gene

Animal Model Products

miRNA for NEAT1 Gene

miRTarBase miRNAs that target NEAT1

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 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

PathCards logo More details on SuperPathways for NEAT1
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

Products:

  1. Drug
No Compound Related Data Available

Transcripts for NEAT1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for NEAT1 Gene

(11) Additional mRNA sequences :
(8) Ensembl transcripts including schematic representations, and UCSC links where relevant :
(6) RNA Central transcripts :

Unigene Clusters for NEAT1 Gene

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

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

Products:

  1. Primer
  2. Gene Expression Assay

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

mRNA expression in normal human tissues for NEAT1 Gene
mRNA expression by GTEx for NEAT1 GenemRNA expression by BioGPS 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

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for NEAT1 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000725681 -- 65,441,914(+) G/A genic_downstream_transcript_variant, non_coding_transcript_variant
rs1000833787 -- 65,428,851(+) C/T genic_downstream_transcript_variant, non_coding_transcript_variant
rs1000889900 -- 65,429,742(+) C/T genic_downstream_transcript_variant, non_coding_transcript_variant
rs1000995374 -- 65,424,017(+) G/A non_coding_transcript_variant
rs1001200330 -- 65,436,570(+) T/G genic_downstream_transcript_variant, non_coding_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

Additional Variant Information for NEAT1 Gene

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

SNP Genotyping and Copy Number Assay Products

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

Disorders for NEAT1 Gene

MalaCards: The human disease database

(36) MalaCards diseases for NEAT1 Gene - From: LncRNADisease, DISEASES, and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search NEAT1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NEAT1

Genetic Association Database
(GAD)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with NEAT1: view

No data available for 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 58
  2. Repression of major histocompatibility complex genes by a human trophoblast ribonucleic acid. (PMID: 9858482) Peyman JA (Biology of reproduction 1999) 2 3 58
  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 58
  4. NEAT1 modulates herpes simplex virus-1 replication by regulating viral gene transcription. (PMID: 27783096) Wang Z … Zhang Y (Cellular and molecular life sciences : CMLS 2017) 3 58
  5. Long non-coding RNA NEAT1 facilitates pancreatic cancer progression through negative modulation of miR-506-3p. (PMID: 27888106) Huang B … Zou Y (Biochemical and biophysical research communications 2017) 3 58

Products for NEAT1 Gene

  • Addgene plasmids for NEAT1

Sources for NEAT1 Gene

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