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    LINC01116 long intergenic non-protein coding RNA 1116 [ Homo sapiens (human) ]

    Gene ID: 375295, updated on 15-Oct-2024

    Summary

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    Official Symbol
    LINC01116provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1116provided by HGNC
    Primary source
    HGNC:HGNC:49259
    See related
    Ensembl:ENSG00000163364 AllianceGenome:HGNC:49259
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TALNEC2
    Expression
    Broad expression in ovary (RPKM 6.9), adrenal (RPKM 5.0) and 15 other tissues See more
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    Genomic context

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    See LINC01116 in Genome Data Viewer
    Location:
    2q31.1
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (176611437..176637609, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (177093539..177119723, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (177476165..177502337, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124907910 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:177453489-177454688 Neighboring gene microRNA 1246 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:177485641-177486840 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12138 Neighboring gene VISTA enhancer hs248 Neighboring gene long intergenic non-protein coding RNA 1117 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12139 Neighboring gene RNA, U6atac small nuclear 14, pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. The novel long non-coding RNA TALNEC2, regulates tumor cell growth and the stemness and radiation response of glioma stem cells. Brodie S, et al. Oncotarget, 2017 May 9. PMID 28423669, Free PMC Article
    2. LINC01116 promotes tumor proliferation and neutrophil recruitment via DDX5-mediated regulation of IL-1β in glioma cell. Wang T, et al. Cell Death Dis, 2020 May 1. PMID 32358484, Free PMC Article
    3. LINC01116 promotes proliferation, invasion and migration of osteosarcoma cells by silencing p53 and EZH2. Zhang ZF, et al. Eur Rev Med Pharmacol Sci, 2019 Aug. PMID 31486480
    4. LINC01116 facilitates colorectal cancer cell proliferation and angiogenesis through targeting EZH2-regulated TPM1. Liang W, et al. J Transl Med, 2021 Jan 26. PMID 33499872, Free PMC Article
    5. Knockdown of LINC01116 inhibits cell migration and invasion in head and neck squamous cell carcinoma through epithelial-mesenchymal transition pathway. Wu J, et al. J Cell Biochem, 2020 Jan. PMID 31452270

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LINC01116-dependent upregulation of RNA polymerase I transcription drives oncogenic phenotypes in lung adenocarcinoma.
      Title: LINC01116-dependent upregulation of RNA polymerase I transcription drives oncogenic phenotypes in lung adenocarcinoma.
    2. Linc01116 Silencing Inhibits the Proliferation and Invasion, Promotes Apoptosis of Chordoma Cells via Regulating the Expression of Mir-9-5p/PKG1.
      Title: Linc01116 Silencing Inhibits the Proliferation and Invasion, Promotes Apoptosis of Chordoma Cells via Regulating the Expression of Mir-9-5p/PKG1.
    3. Hypoxia-induced factor-1alpha promotes radioresistance of esophageal cancer cells by transcriptionally activating LINC01116 and suppressing miR-3612 under hypoxia.
      Title: Hypoxia-induced factor-1α promotes radioresistance of esophageal cancer cells by transcriptionally activating LINC01116 and suppressing miR-3612 under hypoxia.
    4. LINC01116 affects patient survival differently and is dissimilarly expressed in ER+ and ER- breast cancer samples.
      Title: LINC01116 affects patient survival differently and is dissimilarly expressed in ER+ and ER- breast cancer samples.
    5. Comprehensive analysis of candidate signatures of long non-coding RNA LINC01116 and related protein-coding genes in patients with hepatocellular carcinoma.
      Title: Comprehensive analysis of candidate signatures of long non-coding RNA LINC01116 and related protein-coding genes in patients with hepatocellular carcinoma.
    6. LINC01116 Regulates the Proliferation and Apoptosis of Nucleus Pulposus Cells through miR-9-5p-mediated ZIC5 and the Wnt Pathway and Affects the Progression of Intervertebral Disc Degeneration.
      Title: LINC01116 Regulates the Proliferation and Apoptosis of Nucleus Pulposus Cells through miR-9-5p-mediated ZIC5 and the Wnt Pathway and Affects the Progression of Intervertebral Disc Degeneration.
    7. LINC01116 modulates EMT process via binding with AGO1 mRNA in oesophageal squamous cell carcinoma.
      Title: LINC01116 modulates EMT process via binding with AGO1 mRNA in oesophageal squamous cell carcinoma.
    8. The mechanism of lncRNA TALNEC2 regulating miR-19a-3p/JNK to alleviate cerebral ischemia injury in rats with acute cerebral infarction.
      Title: The mechanism of lncRNA TALNEC2 regulating miR-19a-3p/JNK to alleviate cerebral ischemia injury in rats with acute cerebral infarction.
    9. LINC01116 boosts the progression of pituitary adenoma via regulating miR-744-5p/HOXB8 pathway.
      Title: LINC01116 boosts the progression of pituitary adenoma via regulating miR-744-5p/HOXB8 pathway.
    10. Silencing LINC01116 suppresses the development of lung adenocarcinoma via the AKT signaling pathway.
      Title: Silencing LINC01116 suppresses the development of lung adenocarcinoma via the AKT signaling pathway.
    Submit: New GeneRIF Correction See all GeneRIFs (22)

    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)

    General gene information

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    Markers

    Other Names

    • Tumor associated lncRNA expressed in chromosome 2

    Clone Names

    • AC017048.3

    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_040001.3 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC017048, KF456744
      Related
      ENST00000703418.1

    2. NR_188021.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC017048, KF456744

    3. NR_188022.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC017048, KF456744
      Related
      ENST00000695928.2

    4. NR_188023.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC017048, KF456744

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      176611437..176637609 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      177093539..177119723 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials