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    LINC01549 long intergenic non-protein coding RNA 1549 [ Homo sapiens (human) ]

    Gene ID: 100505929, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC01549provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1549provided by HGNC
    Primary source
    HGNC:HGNC:1277
    See related
    AllianceGenome:HGNC:1277
    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
    C21orf37
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC01549 in Genome Data Viewer
    Location:
    21q21.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (17438890..17449185)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (15793985..15804295)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (18811208..18821503)

    Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985511 Neighboring gene NIMA-related kinase 4 pseudogene 1 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr21:18652025-18652526 Neighboring gene MPRA-validated peak4348 silencer Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr21:18743116-18744315 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr21:18790767-18791966 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr21:18810837-18811420 Neighboring gene RNA, U6 small nuclear 113, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18293 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13220 Neighboring gene tRNA-Gly (anticodon GCC) 1-5 Neighboring gene Sharpr-MPRA regulatory region 2602 Neighboring gene ribosomal protein L39 pseudogene 40

    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
    • 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 DNA sequence of human chromosome 21. Hattori M, et al. Nature, 2000 May 18. PMID 10830953
    2. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
    3. TNF-α inhibits glucocorticoid receptor-induced gene expression by reshaping the GR nuclear cofactor profile. Dendoncker K, et al. Proc Natl Acad Sci U S A, 2019 Jun 25. PMID 31182584, Free PMC Article
    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    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_037585.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AI420675, AP000952, BC130500, BX089409

    2. NR_037586.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AI420675, AP000952, BC144391, BX089409

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

      Range
      17438890..17449185
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060945.1 Alternate T2T-CHM13v2.0

      Range
      15793985..15804295
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001005521.1: Suppressed sequence

      Description
      NM_001005521.1: This RefSeq was permanently suppressed because it was mostly repetitive sequence.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A6NIU2.1 GenPept UniProtKB/Swiss-Prot:A6NIU2

    Gene LinkOut

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

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