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NEAT1 nuclear paraspeckle assembly transcript 1 [ Homo sapiens (human) ]

Gene ID: 283131, updated on 23-Apr-2024

Summary

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Official Symbol
NEAT1provided by HGNC
Official Full Name
nuclear paraspeckle assembly transcript 1provided by HGNC
Primary source
HGNC:HGNC:30815
See related
Ensembl:ENSG00000245532 MIM:612769; AllianceGenome:HGNC:30815
Gene type
ncRNA
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
VINC; TncRNA; TP53LC15; LINC00084; NCRNA00084
Summary
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]
Orthologs
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Genomic context

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Location:
11q13.1
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (65422798..65445540)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (65416110..65438833)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (65190269..65213011)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3518 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3519 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3520 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3521 Neighboring gene Sharpr-MPRA regulatory region 3865 Neighboring gene tigger transposable element derived 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65144096-65144596 Neighboring gene FERM domain containing 8 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:65149420-65150619 Neighboring gene solute carrier family 25 member 45 Neighboring gene Sharpr-MPRA regulatory region 10780 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:65153824-65154412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65156452-65157086 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65160023-65160609 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65167805-65168690 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65171719-65172218 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4958 Neighboring gene CRISPRi-validated cis-regulatory element chr11.3233 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:65187227-65187812 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:65188260-65189459 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr11:65189569-65190154 and GRCh37_chr11:65190155-65190740 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4965 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3524 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4966 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4967 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4968 Neighboring gene Sharpr-MPRA regulatory region 4367 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4969 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65210919-65211744 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:65211745-65212569 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4972 Neighboring gene microRNA 612 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4973 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:65222520-65222823 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:65226769-65227414 Neighboring gene FAU pseudogene 4 Neighboring gene NEAT1-MALAT1 intergenic CAGE-defined mid-level expression enhancer Neighboring gene CRISPRi-validated cis-regulatory element chr11.3243 Neighboring gene NEAT1-MALAT1 intergenic CAGE-defined high expression enhancer Neighboring gene enhancer lncRNA neighbor of NEAT1 and MALAT1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Expression of NEAT1 can be used as a predictor for Dex resistance in multiple myeloma patients. Ren Y, et al. BMC Cancer, 2023 Jul 5. PMID 37407915, Free PMC Article
  2. The long non-coding RNA NEAT1 is a ΔNp63 target gene modulating epidermal differentiation. Fierro C, et al. Nat Commun, 2023 Jun 26. PMID 37365156, Free PMC Article
  3. LncRNA NEAT1 Promotes Vascular Endothelial Cell Dysfunction via miR-218-5p/GAB2 and Serves as a Diagnostic Biomarker for Deep Vein Thrombosis. Wang S, et al. Clin Appl Thromb Hemost, 2023 Jan-Dec. PMID 37321605, Free PMC Article
  4. Clinical Importance of the lncRNA NEAT1 in Cancer Patients Treated with Immune Checkpoint Inhibitors. Toker J, et al. Clin Cancer Res, 2023 Jun 13. PMID 37053197, Free PMC Article
  5. An updated review of contribution of long noncoding RNA-NEAT1 to the progression of human cancers. Farzaneh M, et al. Pathol Res Pract, 2023 May. PMID 37043964

See all (440) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Serum Levels of Long Non-coding RNAs NEAT1, GAS5, and GAPLINC Altered in Rheumatoid Arthritis.
    Title: Serum Levels of Long Non-coding RNAs NEAT1, GAS5, and GAPLINC Altered in Rheumatoid Arthritis.
  2. LncRNA NEAT1 in the pathogenesis of liver-related diseases.
    Title: LncRNA NEAT1 in the pathogenesis of liver-related diseases.
  3. Modulation of lncRNA NEAT1 overturns the macrophages based immune response in M. tuberculosis infected patients via miR-373 regulation.
    Title: Modulation of lncRNA NEAT1 overturns the macrophages based immune response in M. tuberculosis infected patients via miR-373 regulation.
  4. The long non-coding RNA NEAT1 promotes the progression of human ovarian cancer through targeting miR-214-3p and regulating angiogenesis.
    Title: The long non-coding RNA NEAT1 promotes the progression of human ovarian cancer through targeting miR-214-3p and regulating angiogenesis.
  5. Role of ATF3 triggering M2 macrophage polarization to protect against the inflammatory injury of sepsis through ILF3/NEAT1 axis.
    Title: Role of ATF3 triggering M2 macrophage polarization to protect against the inflammatory injury of sepsis through ILF3/NEAT1 axis.
  6. The roles of long noncoding RNA NEAT1 in cardiovascular diseases.
    Title: The roles of long noncoding RNA NEAT1 in cardiovascular diseases.
  7. Exosomal lncRNA NEAT1 Inhibits NK-Cell Activity to Promote Multiple Myeloma Cell Immune Escape via an EZH2/PBX1 Axis.
    Title: Exosomal lncRNA NEAT1 Inhibits NK-Cell Activity to Promote Multiple Myeloma Cell Immune Escape via an EZH2/PBX1 Axis.
  8. LncRNA NEAT1 aggravates human microvascular endothelial cell injury by inhibiting the Apelin/Nrf2/HO-1 signalling pathway in type 2 diabetes mellitus with obstructive sleep apnoea.
    Title: LncRNA NEAT1 aggravates human microvascular endothelial cell injury by inhibiting the Apelin/Nrf2/HO-1 signalling pathway in type 2 diabetes mellitus with obstructive sleep apnoea.
  9. Exploring the role of lncrna neat1 knockdown in regulating apoptosis across multiple cancer types: A review.
    Title: Exploring the role of lncrna neat1 knockdown in regulating apoptosis across multiple cancer types: A review.
  10. Genome-wide analyses identify NEAT1 as genetic modifier of age at onset of amyotrophic lateral sclerosis.
    Title: Genome-wide analyses identify NEAT1 as genetic modifier of age at onset of amyotrophic lateral sclerosis.
Submit: New GeneRIF Correction See all GeneRIFs (437)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Other Names

  • MENepsilon/beta
  • long intergenic non-protein coding RNA 84
  • nuclear enriched abundant transcript 1
  • nuclear paraspeckle assembly transcript 1 (non-protein coding)
  • trophoblast MHC class II suppressor
  • trophoblast-derived noncoding RNA
  • virus inducible non-coding RNA

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RISC complex binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables miRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables miRNA inhibitor activity via base-pairing IDA
Inferred from Direct Assay
more info
 PubMed 
enables molecular condensate scaffold activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables molecular condensate scaffold activity TAS
Traceable Author Statement
more info
 PubMed 
enables protein binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in lncRNA-mediated post-transcriptional gene silencing IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in miRNA-mediated post-transcriptional gene silencing IEA
Inferred from Electronic Annotation
more info
  
involved_in nuclear body organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of inflammatory response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of miRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of positive regulation of synoviocyte proliferation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within_negative_effect regulation of mRNA export from nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of RISC complex IEA
Inferred from Electronic Annotation
more info
  
is_active_in paraspeckles IDA
Inferred from Direct Assay
more info
 PubMed 
located_in paraspeckles IEA
Inferred from Electronic Annotation
more info
  
is_active_in paraspeckles TAS
Traceable Author Statement
more info
 PubMed 

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

RNA

  1. NR_028272.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant has a shorter 3' end compared to the MENbeta variant. This results in a shorter transcript, known as MENepsilon or NEAT1_1. The 3' end is stabilized with a canonical poly(A) tail.
    Source sequence(s)
    AI590745, EF177379

  2. NR_131012.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant represents the longer transcript, known as MENbeta or NEAT1_2. The 3' end is stabilized by a triple helical structure.
    Source sequence(s)
    GQ859162
    Related
    ENST00000501122.2

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    65422798..65445540
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    65416110..65438833
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NR_002802.2: Suppressed sequence

    Description
    NR_002802.2: This RefSeq was permanently suppressed because it does not represent the functional transcript.
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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