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    LINC00659 long intergenic non-protein coding RNA 659 [ Homo sapiens (human) ]

    Gene ID: 100652730, updated on 22-Oct-2024

    Summary

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    Official Symbol
    LINC00659provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 659provided by HGNC
    Primary source
    HGNC:HGNC:44316
    See related
    Ensembl:ENSG00000228705 AllianceGenome:HGNC:44316
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Biased expression in duodenum (RPKM 2.0), kidney (RPKM 0.9) and 7 other tissues See more
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    Genomic context

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    See LINC00659 in Genome Data Viewer
    Location:
    20q13.33
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (62774121..62776856, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (64573114..64575849, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (61405473..61408208, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene solute carrier organic anion transporter family member 4A1 Neighboring gene SLCO4A1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61302735-61303693 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61314847-61315390 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61315391-61315933 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61339152-61339665 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61339666-61340178 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61340388-61340934 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61340935-61341479 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:61352726-61352918 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61354746-61355285 Neighboring gene neurotensin receptor 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61366135-61366980 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr20:61371112-61372311 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61392433-61393212 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61400285-61401016 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:61407515-61407676 Neighboring gene uncharacterized LOC105372716 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61424450-61425144 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18214 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13119 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61426422-61426968 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13120 Neighboring gene OGFR antisense RNA 1 Neighboring gene MRG domain binding protein

    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. Exosomal LncRNA LINC00659 transferred from cancer-associated fibroblasts promotes colorectal cancer cell progression via miR-342-3p/ANXA2 axis. Zhou L, et al. J Transl Med, 2021 Jan 6. PMID 33407563, Free PMC Article
    2. Correlation between LncRNA-LINC00659 and clinical prognosis in gastric cancer and study on its biological mechanism. Sheng Y, et al. J Cell Mol Med, 2020 Dec. PMID 33145980, Free PMC Article
    3. Linc00659, a long noncoding RNA, acts as novel oncogene in regulating cancer cell growth in colorectal cancer. Tsai KW, et al. Mol Cancer, 2018 Mar 10. PMID 29523145, Free PMC Article
    4. Upregulated LncRNA-LINC00659 expression by H. pylori infection promoted the progression of gastritis to cancer by regulating PTBP1 expression. Zhang J, et al. Indian J Pathol Microbiol, 2024 Jul 1. PMID 38394397
    5. Long non-coding RNA linc00659 promotes tumour progression by regulating FZD6/Wnt/β-catenin signalling pathway in colorectal cancer via m6A reader IGF2BP1. Xu S, et al. J Gene Med, 2024 Jan. PMID 38009760

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Upregulated LncRNA-LINC00659 expression by H. pylori infection promoted the progression of gastritis to cancer by regulating PTBP1 expression.
      Title: Upregulated LncRNA-LINC00659 expression by H. pylori infection promoted the progression of gastritis to cancer by regulating PTBP1 expression.
    2. Long non-coding RNA linc00659 promotes tumour progression by regulating FZD6/Wnt/beta-catenin signalling pathway in colorectal cancer via m6A reader IGF2BP1.
      Title: Long non-coding RNA linc00659 promotes tumour progression by regulating FZD6/Wnt/β-catenin signalling pathway in colorectal cancer via m6A reader IGF2BP1.
    3. LINC00659 Inhibits Hepatocellular Carcinoma Malignant Progression by Blocking Aerobic Glycolysis through FUS Recruitment and SLC10A1 Modulation.
      Title: LINC00659 Inhibits Hepatocellular Carcinoma Malignant Progression by Blocking Aerobic Glycolysis through FUS Recruitment and SLC10A1 Modulation.
    4. LINC00659 cooperated with ALKBH5 to accelerate gastric cancer progression by stabilising JAK1 mRNA in an m[6] A-YTHDF2-dependent manner.
      Title: LINC00659 cooperated with ALKBH5 to accelerate gastric cancer progression by stabilising JAK1 mRNA in an m(6) A-YTHDF2-dependent manner.
    5. By modulating miR-525-5p/Bax axis, LINC00659 promotes vascular endothelial cell apoptosis.
      Title: By modulating miR-525-5p/Bax axis, LINC00659 promotes vascular endothelial cell apoptosis.
    6. SP1-Induced Upregulation of lncRNA LINC00659 Promotes Tumour Progression in Gastric Cancer by Regulating miR-370/AQP3 Axis.
      Title: SP1-Induced Upregulation of lncRNA LINC00659 Promotes Tumour Progression in Gastric Cancer by Regulating miR-370/AQP3 Axis.
    7. Exosomal LncRNA LINC00659 transferred from cancer-associated fibroblasts promotes colorectal cancer cell progression via miR-342-3p/ANXA2 axis.
      Title: Exosomal LncRNA LINC00659 transferred from cancer-associated fibroblasts promotes colorectal cancer cell progression via miR-342-3p/ANXA2 axis.
    8. Correlation between LncRNA-LINC00659 and clinical prognosis in gastric cancer and study on its biological mechanism.
      Title: Correlation between LncRNA-LINC00659 and clinical prognosis in gastric cancer and study on its biological mechanism.
    9. Linc00659 is a novel oncogenic lncRNA involved in colon cancer cell growth by modulating the cell cycle.
      Title: Linc00659, a long noncoding RNA, acts as novel oncogene in regulating cancer cell growth in colorectal cancer.
    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    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_046224.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      DA633805, DB320598
      Related
      ENST00000657741.2

    2. NR_046225.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site, compared to variant 1.
      Source sequence(s)
      BM850706, DB320598
      Related
      ENST00000701965.2

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      62774121..62776856 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      64573114..64575849 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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