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LINC01138 long intergenic non-protein coding RNA 1138 [ Homo sapiens (human) ]

Gene ID: 388685, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01138provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1138provided by HGNC
Primary source
HGNC:HGNC:49454
See related
Ensembl:ENSG00000274020 AllianceGenome:HGNC:49454
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
LINC00875
Expression
Ubiquitous expression in spleen (RPKM 5.5), lymph node (RPKM 5.3) and 25 other tissues See more
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Genomic context

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Location:
1q21.2
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (148432959..148459920, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (146347450..146374380)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (147905097..147932048, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:143686659-143687364 Neighboring gene PDE4DIP pseudogene 6 Neighboring gene RNA, variant U1 small nuclear 3 Neighboring gene uncharacterized LOC124904400 Neighboring gene family with sequence similarity 91 member A1 pseudogene Neighboring gene uncharacterized LOC105371224 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:143743100-143743638 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:143744178-143744715 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:143749622-143750141 Neighboring gene peptidylprolyl isomerase A like 4G Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1648 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1286 Neighboring gene RNA, variant U1 small nuclear 27

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. Metabolism-related lncRNAs signature to predict the prognosis of colon adenocarcinoma. Sun Y, et al. Cancer Med, 2023 Mar. PMID 36366731, Free PMC Article
  2. The LINC01138 drives malignancies via activating arginine methyltransferase 5 in hepatocellular carcinoma. Li Z, et al. Nat Commun, 2018 Apr 20. PMID 29679004, Free PMC Article
  3. Identification of androgen-responsive lncRNAs as diagnostic and prognostic markers for prostate cancer. Wan X, et al. Oncotarget, 2016 Sep 13. PMID 27556357, Free PMC Article
  4. Knockdown of LINC01138 protects human chondrocytes against IL-1β-induced damage by regulating the hsa-miR-1207-5p/KIAA0101 axis. Zhang J, et al. Immun Inflamm Dis, 2023 Jan. PMID 36705420, Free PMC Article
  5. Silencing long noncoding RNA LINC01138 inhibits aerobic glycolysis to reduce glioma cell proliferation by regulating the microRNA‑375/SP1 axis. Xu C, et al. Mol Med Rep, 2021 Dec. PMID 34643249, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Metabolism-related lncRNAs signature to predict the prognosis of colon adenocarcinoma.
    Title: Metabolism-related lncRNAs signature to predict the prognosis of colon adenocarcinoma.
  2. Knockdown of LINC01138 protects human chondrocytes against IL-1beta-induced damage by regulating the hsa-miR-1207-5p/KIAA0101 axis.
    Title: Knockdown of LINC01138 protects human chondrocytes against IL-1β-induced damage by regulating the hsa-miR-1207-5p/KIAA0101 axis.
  3. Silencing long noncoding RNA LINC01138 inhibits aerobic glycolysis to reduce glioma cell proliferation by regulating the microRNA375/SP1 axis.
    Title: Silencing long noncoding RNA LINC01138 inhibits aerobic glycolysis to reduce glioma cell proliferation by regulating the microRNA‑375/SP1 axis.
  4. LINC01138 interacts with PRMT5 to increase arginine methylation and protein stability of SREBP1, promoting lipid desaturation and cell proliferation in Clear cell renal cell carcinoma.
    Title: The LINC01138 interacts with PRMT5 to promote SREBP1-mediated lipid desaturation and cell growth in clear cell renal cell carcinoma.
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

General gene information

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Markers

Other Names

  • long intergenic non-protein coding RNA 875

Clone Names

  • FLJ17098, FLJ17228, FLJ39739, FLJ99434

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_027468.3 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AK309393, AK310186, BC071624, BM724545, DA386627, DB220560

  2. NR_104014.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two internal exons and uses an alternate splice site at the 3' terminal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AK309393, BC071624, DA386627
    Related
    ENST00000613452.1

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    148432959..148459920 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    146347450..146374380
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_207400.1: Suppressed sequence

    Description
    NM_207400.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein
Heading Accession and Version

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