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    LINC00396 long intergenic non-protein coding RNA 396 [ Homo sapiens (human) ]

    Gene ID: 104355146, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC00396provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 396provided by HGNC
    Primary source
    HGNC:HGNC:42724
    See related
    Ensembl:ENSG00000231428 AllianceGenome:HGNC:42724
    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 LINC00396 in Genome Data Viewer
    Location:
    13q34
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (110053285..110054952)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (109282072..109283739)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (110705632..110707299)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370360 Neighboring gene Sharpr-MPRA regulatory region 11013 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110460038-110460538 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110492397-110493596 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110509939-110511138 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110556058-110557257 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110585574-110586074 Neighboring gene RN7SK pseudogene 10 Neighboring gene long intergenic non-protein coding RNA 3082 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32398 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:110664005-110665204 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:110669511-110670710 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32415 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110717693-110718192 Neighboring gene RNA, 7SL, cytoplasmic 783, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7990 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110772997-110773496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7991 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr13:110774733-110775932 Neighboring gene long intergenic non-protein coding RNA 3032

    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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    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)

    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_126387.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL390755
      Related
      ENST00000411690.2

    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_000013.11 Reference GRCh38.p14 Primary Assembly

      Range
      110053285..110054952
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      109282072..109283739
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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