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    LINC01501 long intergenic non-protein coding RNA 1501 [ Homo sapiens (human) ]

    Gene ID: 340515, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LINC01501provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1501provided by HGNC
    Primary source
    HGNC:HGNC:27988
    See related
    Ensembl:ENSG00000229613 AllianceGenome:HGNC:27988
    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 LINC01501 in Genome Data Viewer
    Location:
    9q22.2
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (90462432..90582746, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (102627454..102747818, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (93224714..93345028, complement)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene NANOG hESC enhancer GRCh37_chr9:93013531-93014052 Neighboring gene olfactory receptor family 7 subfamily E member 116 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28570 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:93068547-93069046 Neighboring gene Sharpr-MPRA regulatory region 9186 Neighboring gene long intergenic non-protein coding RNA 1508 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:93174359-93175096 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:93175097-93175834 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:93175835-93176572 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:93204958-93205625 Neighboring gene NANOG hESC enhancer GRCh37_chr9:93222391-93222892 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108990 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:93375258-93375758 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr9:93375759-93376259 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20021 Neighboring gene DIRAS family GTPase 2 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_109028 Neighboring gene olfactory receptor family 7 subfamily E member 109 pseudogene

    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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    Related articles in PubMed

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

    General gene information

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    Markers

    Clone Names

    • FLJ46333

    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_034157.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL354853, BC040625
      Related
      ENST00000449990.3

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      90462432..90582746 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      102627454..102747818 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001105317.1: Suppressed sequence

      Description
      NM_001105317.1: This RefSeq was permanently suppressed because it is now thought that this gene does not encode a protein.
    Nucleotide Protein
    Heading Accession and Version

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