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    LINC00400 long intergenic non-protein coding RNA 400 [ Homo sapiens (human) ]

    Gene ID: 100874159, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC00400provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 400provided by HGNC
    Primary source
    HGNC:HGNC:42729
    See related
    AllianceGenome:HGNC:42729
    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 adrenal (RPKM 1.7), brain (RPKM 0.9) and 17 other tissues See more
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    Genomic context

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    See LINC00400 in Genome Data Viewer
    Location:
    13q14.11
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (43113165..43159466)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (42331605..42377904)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (43687301..43733602)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370178 Neighboring gene epithelial stromal interaction 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7656 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43559741-43560242 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7657 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7658 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7659 Neighboring gene uncharacterized LOC105370179 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7660 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7661 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7662 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43610507-43611076 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:43615193-43616041 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7663 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7664 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:43620285-43620960 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7665 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7666 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:43632313-43632832 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr13:43635435-43635954 Neighboring gene DnaJ heat shock protein family (Hsp40) member C15 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43693053-43693554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43693555-43694054 Neighboring gene LINC00400 intron CAGE-defined mid-level expression enhancer Neighboring gene NANOG hESC enhancer GRCh37_chr13:43765633-43766138 Neighboring gene molybdenum cofactor synthesis 3 pseudogene 2 Neighboring gene NANOG hESC enhancer GRCh37_chr13:43844306-43844807 Neighboring gene ecto-NOX disulfide-thiol exchanger 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7669 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:43933647-43934232 Neighboring gene ribosomal protein L36 pseudogene 19

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 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_047013.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL138709, AL445217, AV711458

    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
      43113165..43159466
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060937.1 Alternate T2T-CHM13v2.0

      Range
      42331605..42377904
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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