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    LINC02525 long intergenic non-protein coding RNA 2525 [ Homo sapiens (human) ]

    Gene ID: 100507194, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LINC02525provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 2525provided by HGNC
    Primary source
    HGNC:HGNC:53545
    See related
    Ensembl:ENSG00000230269 AllianceGenome:HGNC:53545
    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
    lncNB1; TP53LC14
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC02525 in Genome Data Viewer
    Location:
    6p25.2
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (3182817..3195767, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (3050039..3062993, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (3183051..3196001, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16846 Neighboring gene uncharacterized LOC105374889 Neighboring gene CRISPRi-validated cis-regulatory element chr6.177 Neighboring gene CRISPRi-validated cis-regulatory element chr6.179 Neighboring gene hESC enhancers GRCh37_chr6:3165973-3166571 and GRCh37_chr6:3166572-3167171 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr6:3167172-3167770 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:3168370-3168967 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:3177505-3178025 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:3178965-3179464 Neighboring gene tubulin beta 2B class IIb pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23884 Neighboring gene Sharpr-MPRA regulatory region 8965 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:3194625-3195180 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:3195181-3195734 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:3196289-3196842 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:3209282-3210481 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:3226870-3227530 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:3227531-3228189 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:3229485-3230041 Neighboring gene tubulin beta 2B class IIb Neighboring gene uncharacterized LOC100422781 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:3232034-3232816 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23886 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:3238669-3239168

    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. The long noncoding RNA lncNB1 promotes tumorigenesis by interacting with ribosomal protein RPL35. Liu PY, et al. Nat Commun, 2019 Nov 5. PMID 31690716, Free PMC Article
    2. TP53-inducible putative long noncoding RNAs encode functional polypeptides that suppress cell proliferation. Xu W, et al. Genome Res, 2022 Jun. PMID 35609991, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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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    Other Names

    • lncRNA highly expressed in neuroblastoma 1

    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_038295.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AL445434, BC027024
      Related
      ENST00000435043.3

    2. NR_038296.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' region resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AL445434, AL528822, BC027024
      Related
      ENST00000425384.7

    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
      3182817..3195767 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      3050039..3062993 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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