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    LINC00954 long intergenic non-protein coding RNA 954 [ Homo sapiens (human) ]

    Gene ID: 400946, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC00954provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 954provided by HGNC
    Primary source
    HGNC:HGNC:48668
    See related
    Ensembl:ENSG00000228784 AllianceGenome:HGNC:48668
    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
    Broad expression in spleen (RPKM 1.0), lymph node (RPKM 1.0) and 21 other tissues See more
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    Genomic context

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    See LINC00954 in Genome Data Viewer
    Location:
    2p24.1
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (19868854..19885047)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (19902402..19918580)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (20068615..20084808)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373461 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:19930957-19931473 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:19973852-19974779 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:19974780-19975706 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:19985907-19987106 Neighboring gene CDGSH iron sulfur domain 1 pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:20050625-20051377 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:20061978-20062478 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:20063272-20063772 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15365 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:20100705-20101586 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:20101587-20102467 Neighboring gene tetratricopeptide repeat domain 32 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15370 Neighboring gene WD repeat domain 35 Neighboring gene ring finger protein, transmembrane 1 pseudogene 1

    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. 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
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    3. 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)

    General gene information

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    Markers

    Clone Names

    • FLJ12334, FLJ40608, AC013400.2

    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_033875.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC013400, BC068572, DB155534
      Related
      ENST00000449086.5

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      19868854..19885047
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      19902402..19918580
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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