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

Gene ID: 340515, updated on 10-Oct-2023

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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Location:
9q22.2
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (90462432..90582746, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (102627454..102747818, complement)
105.20220307 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
  • 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_2023_10

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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