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LINC01588 long intergenic non-protein coding RNA 1588 [ Homo sapiens (human) ]

Gene ID: 283551, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01588provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1588provided by HGNC
Primary source
HGNC:HGNC:27503
See related
Ensembl:ENSG00000214900 AllianceGenome:HGNC:27503
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C14orf182
Expression
Low expression observed in reference dataset See more
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Genomic context

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Location:
14q21.3
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (49981669..50007520, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (44186855..44212707, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (50448387..50474238, complement)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC100506446 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:50390203-50390704 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8329 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:50398632-50399133 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8330 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8331 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5713 Neighboring gene Sharpr-MPRA regulatory region 12300 Neighboring gene uncharacterized LOC105370485 Neighboring gene Sharpr-MPRA regulatory region 3168 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8332 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8333 Neighboring gene microRNA 6076 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:50466821-50467468 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8334 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5714 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8335 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8336 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:50469816-50470329 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:50476076-50476576 Neighboring gene long intergenic non-protein coding RNA 1599 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5716 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:50492644-50492860 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5717 Neighboring gene Sharpr-MPRA regulatory region 12952 Neighboring gene Sharpr-MPRA regulatory region 10345 Neighboring gene PDZ and LIM domain 1 pseudogene 1 Neighboring gene ribosomal protein S15a pseudogene 2

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. DCAF8, a novel MuRF1 interaction partner, promotes muscle atrophy. Nowak M, et al. J Cell Sci, 2019 Sep 6. PMID 31391242
  2. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. Choudhury NR, et al. BMC Biol, 2017 Nov 8. PMID 29117863, Free PMC Article
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. Rose JE, et al. Mol Med, 2010 Jul-Aug. PMID 20379614, Free PMC Article
  4. A proteome-scale map of the human interactome network. Rolland T, et al. Cell, 2014 Nov 20. PMID 25416956, Free PMC Article
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Submit: New GeneRIF Correction

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Clone Names

  • MGC149108

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_126496.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AK090420, AL117692, BC058283, BC128083
    Related
    ENST00000529902.2

  2. NR_126497.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate internal exon and contains an alternate 3' terminal exon, compared to variant 1.
    Source sequence(s)
    AK091232, AL117692, BC144351, DB328899

  3. NR_126498.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains alternate 5' and 3' terminal exons, and lacks an alternate internal exon, compared to variant 1.
    Source sequence(s)
    AK091232, AL117692, DB328899
    Related
    ENST00000399206.4

  4. NR_126499.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two 5' exons but contains an alternate 5' terminal exon, and uses an alternate splice site in the 3' terminal exon, compared to variant 1.
    Source sequence(s)
    BC058283, BC128083
    Related
    ENST00000533506.5

  5. NR_126500.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains alternate 5' exon structure, and lacks several 3' exons but contains an alternate 3' terminal exon, compared to variant 1.
    Source sequence(s)
    AK090420, AL117692, BC144351, BX108105, CR980193

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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    49981669..50007520 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    44186855..44212707 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001012706.1: Suppressed sequence

    Description
    NM_001012706.1: This RefSeq was permanently suppressed because the gene is thought to be non-coding.
Nucleotide Protein
Heading Accession and Version

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