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    LINC00652 long intergenic non-protein coding RNA 652 [ Homo sapiens (human) ]

    Gene ID: 29075, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LINC00652provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 652provided by HGNC
    Primary source
    HGNC:HGNC:25003
    See related
    Ensembl:ENSG00000179935 AllianceGenome:HGNC:25003
    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
    HSPC072
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC00652 in Genome Data Viewer
    Location:
    20p11.23
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (18787971..18794584, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (18839824..18846424, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (18768615..18775228, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene D-aminoacyl-tRNA deacylase 1 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:18663802-18664671 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:18680289-18680436 Neighboring gene DTD1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:18708845-18709368 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:18774369-18774908 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 pseudogene 34 Neighboring gene SCP2D1 antisense RNA 1 Neighboring gene lysosome cell death regulator Neighboring gene SCP2 sterol binding domain containing 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:18897388-18898587 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17595 Neighboring gene uncharacterized LOC102724734 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:19028509-19029708 Neighboring gene uncharacterized LOC107985442

    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. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. Zhang QH, et al. Genome Res, 2000 Oct. PMID 11042152, Free PMC Article
    2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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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    Markers

    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_026883.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AF161557, AL035563, BC029555, DB097906

    2. NR_026884.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 5' splice pattern.
      Source sequence(s)
      AL035563, BC029555, DA760399
      Related
      ENST00000669396.1

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      18787971..18794584 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      18839824..18846424 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_014162.1: Suppressed sequence

      Description
      NM_014162.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version

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