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    LINC00680 long intergenic non-protein coding RNA 680 [ Homo sapiens (human) ]

    Gene ID: 106660612, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC00680provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 680provided by HGNC
    Primary source
    HGNC:HGNC:44417
    See related
    Ensembl:ENSG00000290555 AllianceGenome:HGNC:44417
    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
    Ubiquitous expression in endometrium (RPKM 2.1), brain (RPKM 2.1) and 25 other tissues See more
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    Genomic context

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    See LINC00680 in Genome Data Viewer
    Location:
    6p11.2
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (57945834..57961446, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (57784624..57800233, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (58272112..58287724, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927268 Neighboring gene tRNA-Ala (anticodon AGC) 12-3 Neighboring gene LINC00680-GUSBP4 readthrough, transcribed pseudogene Neighboring gene GUSB pseudogene 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:58263882-58264790 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24710 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24711 Neighboring gene uncharacterized LOC101927293 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene 15 Neighboring gene uncharacterized LOC124901336

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. LINC00680 modulates docetaxel resistance in breast cancer via the miR-320b/CDKL5 axis. Li J, et al. Int J Immunopathol Pharmacol, 2022 Jan-Dec. PMID 35667653, Free PMC Article
    2. LncRNA LINC00680 promotes lung adenocarcinoma growth via binding to GATA6 and canceling GATA6-mediated suppression of SOX12 expression. Sun X, et al. Exp Cell Res, 2021 Aug 1. PMID 34029572
    3. Long non-coding RNA LINC00680 functions as a ceRNA to promote esophageal squamous cell carcinoma progression through the miR-423-5p/PAK6 axis. Xue ST, et al. Mol Cancer, 2022 Mar 7. PMID 35255921, Free PMC Article
    4. LINC00680 enhances hepatocellular carcinoma stemness behavior and chemoresistance by sponging miR-568 to upregulate AKT3. Shu G, et al. J Exp Clin Cancer Res, 2021 Jan 26. PMID 33499874, Free PMC Article
    5. CRISPRi-based genome-scale identification of functional long noncoding RNA loci in human cells. Liu SJ, et al. Science, 2017 Jan 6. PMID 27980086, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LINC00680 modulates docetaxel resistance in breast cancer via the miR-320b/CDKL5 axis.
      Title: LINC00680 modulates docetaxel resistance in breast cancer via the miR-320b/CDKL5 axis.
    2. Long non-coding RNA LINC00680 functions as a ceRNA to promote esophageal squamous cell carcinoma progression through the miR-423-5p/PAK6 axis.
      Title: Long non-coding RNA LINC00680 functions as a ceRNA to promote esophageal squamous cell carcinoma progression through the miR-423-5p/PAK6 axis.
    3. LncRNA LINC00680 promotes lung adenocarcinoma growth via binding to GATA6 and canceling GATA6-mediated suppression of SOX12 expression.
      Title: LncRNA LINC00680 promotes lung adenocarcinoma growth via binding to GATA6 and canceling GATA6-mediated suppression of SOX12 expression.
    4. LINC00680 enhances hepatocellular carcinoma stemness behavior and chemoresistance by sponging miR-568 to upregulate AKT3.
      Title: LINC00680 enhances hepatocellular carcinoma stemness behavior and chemoresistance by sponging miR-568 to upregulate AKT3.
    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)

    General gene information

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    Readthrough LINC00680-GUSBP4

    Readthrough gene: LINC00680-GUSBP4, Included gene: GUSBP4

    Clone Names

    • FLJ13549, DKFZp761D0811

    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_125727.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the reference transcript.
      Source sequence(s)
      AL021368, AL162041, BC011838, BI756196, CA334877
      Related
      ENST00000418368.2

    2. NR_125728.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AL021368, AL162041, AL541195, BC011838, CA334877, DA613065
      Related
      ENST00000418765.7

    3. NR_125729.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate internal exon and uses an alternate splice site, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AL021368, AL162041, BC011838, BC017330, CA334877
      Related
      ENST00000450081.6

    4. NR_132994.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate internal splice site, resulting in a longer transcript, compared to variant 1.
      Source sequence(s)
      AK023611, AL021368, AL162041, BC065547
      Related
      ENST00000842099.1

    5. NR_132995.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate internal splice site, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AL021368, AL162041, BC011838
      Related
      ENST00000399751.7

    6. NR_132996.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks two alternate internal exons, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AK023611, AL021368, AL162041, BE885753
      Related
      ENST00000841712.1

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      57945834..57961446 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      57784624..57800233 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases