Transcript: NEAT1:6

Basic information

LNCipedia transcript ID: NEAT1:6 
HGNC Gene Symbol: NEAT1    
HGNC Full Gene Name: nuclear paraspeckle assembly transcript 1
Ensembl Gene ID: ENSG00000245532
Ensembl Transcript ID: ENST00000501122
RefSeq ID: NR_131012
Location (hg38): chr11:65422798-65445540
Strand: +
Class: intergenic
Sequence Ontology term: lincRNA
Transcript size: 22743 bp
Exons: 1
Sources: Biogazelle lncRNA chip; Ensembl release 64 - Sep 2011; Gencode v13; Ensembl release 68 - Jul 2012; NONCODE v4; Ensembl release 75 - Feb 2014; Ensembl release 83 - Dec 2015; Ensembl release 87 - Dec 2016; Ensembl release 90 - Aug 2017; Ensembl release 92 - Apr 2018; Refseq - NCBI Annotation Release 106
Alternative transcript names: ENST00000501122; ENST00000501122.2; NEAT1-001; OTTHUMT00000389142.3; NONHSAT022112; NR_131012.1
Alternative gene names: ENSG00000245532; NEAT1; ENSG00000245532.2; OTTHUMG00000166321.3; ENSG00000245532.4; ENSG00000245532.5; TncRNA; MENepsilon/beta; LINC00084; VINC; ENSG00000245532.6; ENSG00000245532.7; ENSG00000245532.8


RNA sequence:

Structure:

Protein coding potential

Metric Raw result Interpretation
PRIDE reprocessing 2.0 0 non-coding 
Lee translation initiation sites 1 non-coding 
PhyloCSF score 16.321 non-coding 
CPAT coding probability 5.48% non-coding 
Bazzini small ORFs 0 non-coding 

In stringent set: no

Locus conservation

Locus conservation?
NEAT1:6 no no no no

Available literature

  1. He (2016), Aberrant NEAT1 expression is associated with clinical outcome in high grade glioma patients., APMIS
  2. Hu (2016), The plasma lncRNA acting as fingerprint in non-small-cell lung cancer., Tumour Biol.
  3. Ichigozaki (2016), Serum long non-coding RNA, snoRNA host gene 5 level as a new tumor marker of malignant melanoma., Exp. Dermatol.
  4. Jin (2016), Detection of the long noncoding RNAs nuclear-enriched autosomal transcript 1 (NEAT1) and metastasis associated lung adenocarcinoma transcript 1 in the peripheral blood of HIV-1-infected patients., HIV Med.
  5. Lennox (2016), Cellular localization of long non-coding RNAs affects silencing by RNAi more than by antisense oligonucleotides., Nucleic Acids Res.
  6. Wilusz (2016), Long noncoding RNAs: Re-writing dogmas of RNA processing and stability., Biochim. Biophys. Acta
  7. Zhen (2016), Long noncoding RNA NEAT1 promotes glioma pathogenesis by regulating miR-449b-5p/c-Met axis., Tumour Biol.
  8. Barry (2015), Long Non-Coding RNA Expression during Aging in the Human Subependymal Zone., Front Neurol
  9. Bhattacharyya (2015), The Malat1 long non-coding RNA is upregulated by signalling through the PERK axis of unfolded protein response during flavivirus infection., Sci Rep
  10. Blume (2015), p53-dependent non-coding RNA networks in chronic lymphocytic leukemia., Leukemia
  11. Bo (2015), Upregulated long non-coding RNA AFAP1-AS1 expression is associated with progression and poor prognosis of nasopharyngeal carcinoma., Oncotarget
  12. Budhiraja (2015), Mining the human complexome database identifies RBM14 as an XPO1-associated protein involved in HIV-1 Rev function., J. Virol.
  13. Cabili (2015), Localization and abundance analysis of human lncRNAs at single-cell and single-molecule resolution., Genome Biol.
  14. Cajigas (2015), Evf2 lncRNA/BRG1/DLX1 interactions reveal RNA-dependent inhibition of chromatin remodeling., Development
  15. Carter (2015), Circulating long noncoding RNA GAS5 levels are correlated to prevalence of type 2 diabetes mellitus., BBA Clin
  16. Chen (2015), Predicting lncRNA-disease associations and constructing lncRNA functional similarity network based on the information of miRNA., Sci Rep
  17. Chen (2015), Up regulation of the long non-coding RNA NEAT1 promotes esophageal squamous cell carcinoma cell progression and correlates with poor prognosis., Am J Cancer Res
  18. Choudhry (2015), Tumor hypoxia induces nuclear paraspeckle formation through HIF-2α dependent transcriptional activation of NEAT1 leading to cancer cell survival., Oncogene
  19. Dobson (2015), A conserved charged single α-helix with a putative steric role in paraspeckle formation., RNA
  20. Elbarbary (2015), CARMing down the SINEs of anarchy: two paths to freedom from paraspeckle detention., Genes Dev.
  21. Giannakakis (2015), Contrasting expression patterns of coding and noncoding parts of the human genome upon oxidative stress., Sci Rep
  22. Guo (2015), Clinical implication of long non-coding RNA NEAT1 expression in hepatocellular carcinoma patients., Int J Clin Exp Pathol
  23. Hennig (2015), Prion-like domains in RNA binding proteins are essential for building subnuclear paraspeckles., J. Cell Biol.
  24. Hu (2015), A common set of distinct features that characterize noncoding RNAs across multiple species., Nucleic Acids Res.
  25. Hu (2015), Protein arginine methyltransferase CARM1 attenuates the paraspeckle-mediated nuclear retention of mRNAs containing IRAlus., Genes Dev.
  26. Imam (2015), The lncRNA NRON modulates HIV-1 replication in a NFAT-dependent manner and is differentially regulated by early and late viral proteins., Sci Rep
  27. Kawaguchi (2015), SWI/SNF chromatin-remodeling complexes function in noncoding RNA-dependent assembly of nuclear bodies., Proc. Natl. Acad. Sci. U.S.A.
  28. Kawaguchi (2015), Chromatin remodeling complexes in the assembly of long noncoding RNA-dependent nuclear bodies., Nucleus
  29. Lee (2015), The structure of human SFPQ reveals a coiled-coil mediated polymer essential for functional aggregation in gene regulation., Nucleic Acids Res.
  30. Li (2015), NEAT expression is associated with tumor recurrence and unfavorable prognosis in colorectal cancer., Oncotarget
  31. Liu (2015), Altered expression of long non-coding RNAs during genotoxic stress-induced cell death in human glioma cells., J. Neurooncol.
  32. Oliver (2015), Disruption of Visc-2, a Brain-Expressed Conserved Long Noncoding RNA, Does Not Elicit an Overt Anatomical or Behavioral Phenotype., Cereb. Cortex
  33. Pan (2015), Upregulation and clinicopathological significance of long non-coding NEAT1 RNA in NSCLC tissues., Asian Pac. J. Cancer Prev.
  34. Pastori (2015), The Bromodomain protein BRD4 controls HOTAIR, a long noncoding RNA essential for glioblastoma proliferation., Proc. Natl. Acad. Sci. U.S.A.
  35. Peng (2015), Long non-coding RNA MEG3 functions as a competing endogenous RNA to regulate gastric cancer progression., J. Exp. Clin. Cancer Res.
  36. Persson (2015), Transcriptome analysis of controlled and therapy-resistant childhood asthma reveals distinct gene expression profiles., J. Allergy Clin. Immunol.
  37. Quek (2015), lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs., Nucleic Acids Res.
  38. Rice (2015), Roles of microRNAs and long-noncoding RNAs in human immunodeficiency virus replication., Wiley Interdiscip Rev RNA
  39. Ryan (2015), Transcriptomic signatures in whole blood of patients who acquire a chronic inflammatory response syndrome (CIRS) following an exposure to the marine toxin ciguatoxin., BMC Med Genomics
  40. Shen (2015), Exploration of Deregulated Long Non-Coding RNAs in Association with Hepatocarcinogenesis and Survival., Cancers (Basel)
  41. Szczepińska (2015), DIS3 shapes the RNA polymerase II transcriptome in humans by degrading a variety of unwanted transcripts., Genome Res.
  42. Sørensen (2015), Long non-coding RNA expression profiles predict metastasis in lymph node-negative breast cancer independently of traditional prognostic markers., Breast Cancer Res.
  43. Wang (2015), Identification of lncRNA-associated competing triplets reveals global patterns and prognostic markers for cancer., Nucleic Acids Res.
  44. Wang (2015), Serum LncRNAs Profiles Serve as Novel Potential Biomarkers for the Diagnosis of HBV-Positive Hepatocellular Carcinoma., PLoS ONE
  45. Xiao (2015), Predicting the functions of long noncoding RNAs using RNA-seq based on Bayesian network., Biomed Res Int
  46. Yamazaki (2015), The building process of the functional paraspeckle with long non-coding RNAs., Front Biosci (Elite Ed)
  47. Yin (2015), SnoVectors for nuclear expression of RNA., Nucleic Acids Res.
  48. Atianand (2014), Long non-coding RNAs and control of gene expression in the immune system., Trends Mol Med
  49. Chakravarty (2014), The oestrogen receptor alpha-regulated lncRNA NEAT1 is a critical modulator of prostate cancer., Nat Commun
  50. Cooper (2014), Long Non-Coding RNA NEAT1 Associates with SRp40 to Temporally Regulate PPARγ2 Splicing during Adipogenesis in 3T3-L1 Cells., Genes (Basel)
  51. Gremlich (2014), The long non-coding RNA NEAT1 is increased in IUGR placentas, leading to potential new hypotheses of IUGR origin/development., Placenta
  52. Guallar (2014), RNA-binding proteins in pluripotency, differentiation, and reprogramming., Front Biol (Beijing)
  53. Hirose (2014), NEAT1 long noncoding RNA regulates transcription via protein sequestration within subnuclear bodies., Mol. Biol. Cell
  54. Huang (2014), Urinary Xist is a potential biomarker for membranous nephropathy., Biochem. Biophys. Res. Commun.
  55. Ishizuka (2014), Formation of nuclear bodies by the lncRNA Gomafu-associating proteins Celf3 and SF1., Genes Cells
  56. Kambara (2014), Negative regulation of the interferon response by an interferon-induced long non-coding RNA., Nucleic Acids Res.
  57. Li (2014), Decoding the noncoding: prospective of lncRNA-mediated innate immune regulation., RNA Biol
  58. Li (2014), Discovery of Protein-lncRNA Interactions by Integrating Large-Scale CLIP-Seq and RNA-Seq Datasets., Front Bioeng Biotechnol
  59. Marques Howarth (2014), Long noncoding RNA EWSAT1-mediated gene repression facilitates Ewing sarcoma oncogenesis., J. Clin. Invest.
  60. Park (2014), lncRNAtor: a comprehensive resource for functional investigation of long non-coding RNAs., Bioinformatics
  61. Schmid (2014), SnapShot: nuclear RNAPII transcript modification., Cell
  62. Shelkovnikova (2014), Compromised paraspeckle formation as a pathogenic factor in FUSopathies., Hum. Mol. Genet.
  63. Shen (2014), Phosphorothioate oligonucleotides can displace NEAT1 RNA and form nuclear paraspeckle-like structures., Nucleic Acids Res.
  64. Shichino (2014), Meiotic long non-coding meiRNA accumulates as a dot at its genetic locus facilitated by Mmi1 and plays as a decoy to lure Mmi1., Open Biol
  65. Standaert (2014), The long noncoding RNA Neat1 is required for mammary gland development and lactation., RNA
  66. Su (2014), Comprehensive analysis of long non-coding RNAs in human breast cancer clinical subtypes., Oncotarget
  67. Takahashi (2014), Extracellular vesicle-mediated transfer of long non-coding RNA ROR modulates chemosensitivity in human hepatocellular cancer., FEBS Open Bio
  68. Takahashi (2014), Widespread genome transcription: new possibilities for RNA therapies., Biochem. Biophys. Res. Commun.
  69. West (2014), The long noncoding RNAs NEAT1 and MALAT1 bind active chromatin sites., Mol. Cell
  70. Xu (2014), Long non-coding RNA LSINCT5 predicts negative prognosis and exhibits oncogenic activity in gastric cancer., Medicine (Baltimore)
  71. Yoon (2014), PAR-CLIP analysis uncovers AUF1 impact on target RNA fate and genome integrity., Nat Commun
  72. You (2014), MicroRNA-449a inhibits cell growth in lung cancer and regulates long noncoding RNA nuclear enriched abundant transcript 1., Indian J Cancer
  73. Zeng (2014), Inhibition of long non-coding RNA NEAT1 impairs myeloid differentiation in acute promyelocytic leukemia cells., BMC Cancer
  74. Zhao (2014), Role of HOTAIR long noncoding RNA in metastatic progression of lung cancer., Eur Rev Med Pharmacol Sci
  75. Bavarva (2013), Characterizing the Genetic Basis for Nicotine Induced Cancer Development: A Transcriptome Sequencing Study., PLoS ONE
  76. Chen (2013), Novel human lncRNA-disease association inference based on lncRNA expression profiles., Bioinformatics
  77. Dodd (2013), Digital quantitation of potential therapeutic target RNAs., Nucleic Acid Ther
  78. Du (2013), Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer., Nat. Struct. Mol. Biol.
  79. Guan (2013), Switching cell fate, ncRNAs coming to play., Cell Death Dis
  80. Hangauer (2013), Pervasive transcription of the human genome produces thousands of previously unidentified long intergenic noncoding RNAs., PLoS Genet.
  81. Kapusta (2013), Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs., PLoS Genet.
  82. Naganuma (2013), Paraspeckle formation during the biogenesis of long non-coding RNAs., RNA Biol
  83. Nishimoto (2013), The long non-coding RNA nuclear-enriched abundant transcript 1_2 induces paraspeckle formation in the motor neuron during the early phase of amyotrophic lateral sclerosis., Mol Brain
  84. Tang (2013), Long noncoding RNA HOTAIR is associated with motility, invasion, and metastatic potential of metastatic melanoma., Biomed Res Int
  85. Wan (2013), Long non-coding RNA ANRIL (CDKN2B-AS) is induced by the ATM-E2F1 signaling pathway., Cell. Signal.
  86. Zhang (2013), NEAT1 long noncoding RNA and paraspeckle bodies modulate HIV-1 posttranscriptional expression., MBio
  87. Clark (2012), Genome-wide analysis of long noncoding RNA stability., Genome Res.
  88. Hirose (2012), Paraspeckles: possible nuclear hubs by the RNA for the RNA., Biomol Concepts
  89. Ip (2012), Long non-coding RNAs in nuclear bodies., Dev. Growth Differ.
  90. Johnson (2012), Long non-coding RNAs in Huntington's disease neurodegeneration., Neurobiol. Dis.
  91. Lipovich (2012), Activity-dependent human brain coding/noncoding gene regulatory networks., Genetics
  92. Miyagawa (2012), Identification of cis- and trans-acting factors involved in the localization of MALAT-1 noncoding RNA to nuclear speckles., RNA
  93. Mizutani (2012), Identification and characterization of novel genotoxic stress-inducible nuclear long noncoding RNAs in mammalian cells., PLoS ONE
  94. Naganuma (2012), Alternative 3'-end processing of long noncoding RNA initiates construction of nuclear paraspeckles., EMBO J.
  95. Nakagawa (2012), Malat1 is not an essential component of nuclear speckles in mice., RNA
  96. Passon (2012), Structure of the heterodimer of human NONO and paraspeckle protein component 1 and analysis of its role in subnuclear body formation., Proc. Natl. Acad. Sci. U.S.A.
  97. Qureshi (2012), Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease., Nat. Rev. Neurosci.
  98. Schor (2012), Perturbation of chromatin structure globally affects localization and recruitment of splicing factors., PLoS ONE
  99. Yin (2012), Long noncoding RNAs with snoRNA ends., Mol. Cell
  100. Guttman (2011), lincRNAs act in the circuitry controlling pluripotency and differentiation., Nature
  101. Mao (2011), Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs., Nat. Cell Biol.
  102. Michelhaugh (2011), Mining Affymetrix microarray data for long non-coding RNAs: altered expression in the nucleus accumbens of heroin abusers., J. Neurochem.
  103. Nakagawa (2011), eXIST with matrix-associated proteins., Trends Cell Biol.
  104. Nakagawa (2011), Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice., J. Cell Biol.
  105. Shevtsov (2011), Nucleation of nuclear bodies by RNA., Nat. Cell Biol.
  106. Silva (2011), LSINCT5 is over expressed in breast and ovarian cancer and affects cellular proliferation., RNA Biol
  107. Simon (2011), The genomic binding sites of a noncoding RNA., Proc. Natl. Acad. Sci. U.S.A.
  108. Tollervey (2011), Characterizing the RNA targets and position-dependent splicing regulation by TDP-43., Nat. Neurosci.
  109. Yang (2011), Genomewide characterization of non-polyadenylated RNAs., Genome Biol.
  110. Zong (2011), RNA splicing control: yet another gene regulatory role for long nuclear noncoding RNAs., RNA Biol
  111. Mercer (2010), Long noncoding RNAs in neuronal-glial fate specification and oligodendrocyte lineage maturation., BMC Neurosci
  112. Murthy (2010), Identification of protein interaction regions of VINC/NEAT1/Men epsilon RNA., FEBS Lett.
  113. Souquere (2010), Highly ordered spatial organization of the structural long noncoding NEAT1 RNAs within paraspeckle nuclear bodies., Mol. Biol. Cell
  114. Chen (2009), Altered nuclear retention of mRNAs containing inverted repeats in human embryonic stem cells: functional role of a nuclear noncoding RNA., Mol. Cell
  115. Clemson (2009), An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles., Mol. Cell
  116. Friedel (2009), Conserved principles of mammalian transcriptional regulation revealed by RNA half-life., Nucleic Acids Res.
  117. Sasaki (2009), MENepsilon/beta noncoding RNAs are essential for structural integrity of nuclear paraspeckles., Proc. Natl. Acad. Sci. U.S.A.
  118. Sunwoo (2009), MEN epsilon/beta nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles., Genome Res.
  119. Hutchinson (2007), A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains., BMC Genomics
  120. Saha (2006), Identification and characterization of a virus-inducible non-coding RNA in mouse brain., J. Gen. Virol.
  121. Geirsson (2003), Human trophoblast noncoding RNA suppresses CIITA promoter III activity in murine B-lymphocytes., Biochem. Biophys. Res. Commun.
  122. Peyman (1999), Repression of major histocompatibility complex genes by a human trophoblast ribonucleic acid., Biol. Reprod.
  123. Guru (1997), A transcript map for the 2.8-Mb region containing the multiple endocrine neoplasia type 1 locus., Genome Res.


LNCipedia transcript ID history

LNCipedia version LNCipedia transcript ID
1.3 lnc-FRMD8-1:3
3.1 lnc-AP000769.1-2:3
4.0 NEAT1:6
4.1 NEAT1:6
5.0 NEAT1:6
5.1 NEAT1:6
5.2 NEAT1:6