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    LINC00689 long intergenic non-protein coding RNA 689 [ Homo sapiens (human) ]

    Gene ID: 154822, updated on 2-Nov-2024

    Summary

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    Official Symbol
    LINC00689provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 689provided by HGNC
    Primary source
    HGNC:HGNC:27217
    See related
    Ensembl:ENSG00000231419 AllianceGenome:HGNC:27217
    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
    STORM
    Summary
    Implicated in colorectal cancer. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC00689 in Genome Data Viewer
    Location:
    7q36.3
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (159008354..159026238)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (160234066..160252596)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (158801045..158818929)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901794 Neighboring gene uncharacterized LOC124901795 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158768653-158769393 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26936 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158806403-158807032 Neighboring gene LINC00689 intron CAGE-defined high expression enhancer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158820859-158821787 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158823906-158824558 Neighboring gene Sharpr-MPRA regulatory region 8832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158832214-158832714 Neighboring gene vasoactive intestinal peptide receptor 2 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:158850668-158851867 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158876624-158877154 Neighboring gene VISTA enhancer hs1753 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:158905439-158906114 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:158939357-158940556 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:158961997-158963196 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:158984505-158985004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26937 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18875 Neighboring gene phosphatidylinositol-4-phosphate 5-kinase type 1 pseudogene 2

    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 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. LINC00689 induces gastric cancer progression via modulating the miR-338-3p/HOXA3 axis. Lu H, et al. J Gene Med, 2020 Dec. PMID 32926751
    2. eIF4E phosphorylation by MST1 reduces translation of a subset of mRNAs, but increases lncRNA translation. Min KW, et al. Biochim Biophys Acta Gene Regul Mech, 2017 Jul. PMID 28487214
    3. LncRNA LINC00689 Promotes the Tumorigenesis of Glioma via Mediation of miR-526b-3p/IGF2BP1 Axis. Zhan WL, et al. Neuromolecular Med, 2021 Sep. PMID 33389570
    4. A 3' UTR SNP rs885863, a cis-eQTL for the circadian gene VIPR2 and lincRNA 689, is associated with opioid addiction. Levran O, et al. PLoS One, 2019. PMID 31689297, Free PMC Article
    5. LncRNA LINC00689 promotes the growth, metastasis and glycolysis of glioma cells by targeting miR-338-3p/PKM2 axis. Liu X, et al. Biomed Pharmacother, 2019 Sep. PMID 31181442

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LncRNA LINC00689 Promotes the Tumorigenesis of Glioma via Mediation of miR-526b-3p/IGF2BP1 Axis.
      Title: LncRNA LINC00689 Promotes the Tumorigenesis of Glioma via Mediation of miR-526b-3p/IGF2BP1 Axis.
    2. LINC00689 induces gastric cancer progression via modulating the miR-338-3p/HOXA3 axis.
      Title: LINC00689 induces gastric cancer progression via modulating the miR-338-3p/HOXA3 axis.
    3. SP1-induced lncRNA LINC00689 overexpression contributes to osteosarcoma progression via the miR-655/SOX18 axis.
      Title: SP1-induced lncRNA LINC00689 overexpression contributes to osteosarcoma progression via the miR-655/SOX18 axis.
    4. Study reports for a first time an association of a (3' UTR) variant rs885863 in VIPR2 gene and opioid addiction. This single nucleotide polymorphism is an expression quantitative trait locus for VIPR2 and a long intergenic non-coding RNA, lincRNA 689. The study provides preliminary insight into the relationship between genetic variants in circadian rhythm genes and lincRNA in their vicinity, and opioid addiction.
      Title: A 3' UTR SNP rs885863, a cis-eQTL for the circadian gene VIPR2 and lincRNA 689, is associated with opioid addiction.
    5. LINC00689/miR-338-3p/PKM2 axis might play an essential role in glioma progression.
      Title: LncRNA LINC00689 promotes the growth, metastasis and glycolysis of glioma cells by targeting miR-338-3p/PKM2 axis.
    Submit: New GeneRIF Correction

    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

    General gene information

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    Markers

    Other Names

    • Stress- and TNF-alpha-activated ORF Micropeptide

    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_024394.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC004863, BC042556
      Related
      ENST00000438049.5

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      159008354..159026238
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      160234066..160252596
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_198345.1: Suppressed sequence

      Description
      NM_198345.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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