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    LNC-LBCS lncRNA bladder and prostate cancer suppressor, hnRNPK interacting [ Homo sapiens (human) ]

    Gene ID: 100506885, updated on 22-Oct-2024

    Summary

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    Official Symbol
    LNC-LBCSprovided by HGNC
    Official Full Name
    lncRNA bladder and prostate cancer suppressor, hnRNPK interactingprovided by HGNC
    Primary source
    HGNC:HGNC:54418
    See related
    Ensembl:ENSG00000228412 AllianceGenome:HGNC:54418
    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
    LBCS
    Expression
    Biased expression in thyroid (RPKM 1.7), testis (RPKM 0.9) and 8 other tissues See more
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    Genomic context

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    See LNC-LBCS in Genome Data Viewer
    Location:
    6p22.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (19729421..19804759, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (19601060..19676404, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (19729652..19804990, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1 pseudogene 3 Neighboring gene RNA, U6 small nuclear 801, pseudogene Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr6:19691659-19692162 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:19715338-19715863 Neighboring gene VISTA enhancer hs1533 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr6:19730720-19731919 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:19734675-19735175 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr6:19749583-19750782 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:19764761-19765373 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:19765374-19765985 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16976 Neighboring gene uncharacterized LOC105374963 Neighboring gene NANOG hESC enhancer GRCh37_chr6:19811543-19812108 Neighboring gene inhibitor of DNA binding 4

    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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Results found the expression of Lnc-LBCS was lower in castration resistant prostate cancer (CRPC) cells lines and tissues. LBCS downregulation was correlated with higher Gleason Score, T stage and poor prognosis of CRPC patients. Lnc-LBCS functions as a novel AR translational regulator that suppresses castration resistance of prostate cancer by interacting with hnRNPK.
      Title: A novel AR translational regulator lncRNA LBCS inhibits castration resistance of prostate cancer.
    2. As a novel regulator, lnc-LBCS plays an important tumor-suppressor role in BCSCs' self-renewal and chemoresistance, contributing to weak tumorigenesis and enhanced chemosensitivity. The lnc-LBCS-hnRNPK-EZH2-SOX2 regulatory axis may represent a therapeutic target for clinical intervention in chemoresistant bladder cancer.
      Title: Long Noncoding RNA LBCS Inhibits Self-Renewal and Chemoresistance of Bladder Cancer Stem Cells through Epigenetic Silencing of SOX2.
    Submit: New GeneRIF Correction

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide association study link novel loci to endometriosis.
    EBI GWAS Catalog

    Variation

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    See Variation Viewer (GRCh37.p13)

    General gene information

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    Other Names

    • low expressed in bladder cancer stem cells

    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_134649.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AK092541, AL022726, HY001876
      Related
      ENST00000607810.6

    2. NR_134650.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon, resulting in a shorter transcript than variant 1.
      Source sequence(s)
      AA810378, AL022726, HY001876
      Related
      ENST00000457670.3

    3. NR_134651.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two exons and contains two alternate 3' exons, resulting in a shorter transcript than variant 1.
      Source sequence(s)
      AL137839, HY001876, HY185276
      Related
      ENST00000670218.1

    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
      19729421..19804759 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      19601060..19676404 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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