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    LINC01940 long intergenic non-protein coding RNA 1940 [ Homo sapiens (human) ]

    Gene ID: 401039, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LINC01940provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1940provided by HGNC
    Primary source
    HGNC:HGNC:52763
    See related
    Ensembl:ENSG00000227744 AllianceGenome:HGNC:52763
    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
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC01940 in Genome Data Viewer
    Location:
    2q37.3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (238919300..238926269, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (239410867..239417836, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (239840996..239847965, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC100287387 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239754662-239755172 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239755173-239755683 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239757217-239757726 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239757727-239758237 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:239764522-239764712 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57458 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57450 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:239765771-239766270 Neighboring gene Sharpr-MPRA regulatory region 8511 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239773413-239774030 Neighboring gene NANOG hESC enhancer GRCh37_chr2:239781475-239781979 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:239798834-239799355 Neighboring gene twist family bHLH transcription factor 2 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57501 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57510 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:239864003-239864503 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239906676-239907658 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239907659-239908639 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_57531 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:239936997-239937826 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:239957575-239958194 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:239989039-239989540 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:239989541-239990040 Neighboring gene histone deacetylase 4 Neighboring gene microRNA 4440 Neighboring gene microRNA 4441

    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

    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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    Clone Names

    • FLJ43879, AC114788.2

    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_034162.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC114788
      Related
      ENST00000455228.1

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      238919300..238926269 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      239410867..239417836 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001001698.1: Suppressed sequence

      Description
      NM_001001698.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version

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