U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LINC00052 long intergenic non-protein coding RNA 52 [ Homo sapiens (human) ]

Gene ID: 145978, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Official Symbol
LINC00052provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 52provided by HGNC
Primary source
HGNC:HGNC:26455
See related
Ensembl:ENSG00000259527 AllianceGenome:HGNC:26455
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
TMEM83; NCRNA00052
Summary
Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LINC00052 in Genome Data Viewer
Location:
15q25.3
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (87576929..87579686)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (85331488..85334245)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (88120160..88122917)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984735 Neighboring gene uncharacterized LOC102724465 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:87911835-87913034 Neighboring gene RNA, U6 small nuclear 185, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:88052812-88053364 Neighboring gene MPRA-validated peak2412 silencer Neighboring gene uncharacterized LOC124903579 Neighboring gene uncharacterized LOC124903580

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Long Non-Coding RNA LINC00052 Targets miR-548p/Notch2/Pyk2 to Modulate Tumor Budding and Metastasis of Human Breast Cancer. Huang X, et al. Biochem Genet, 2023 Feb. PMID 35918619
  2. LINC00052 ameliorates acute kidney injury by sponging miR-532-3p and activating the Wnt signaling pathway. Li X, et al. Aging (Albany NY), 2020 Nov 24. PMID 33231561, Free PMC Article
  3. Changes in the transcriptome profile of breast cancer cells grown as spheroids. Muñoz-Galindo L, et al. Biochem Biophys Res Commun, 2019 Sep 3. PMID 31301772
  4. LINC00052 upregulates EPB41L3 to inhibit migration and invasion of hepatocellular carcinoma by binding miR-452-5p. Zhu L, et al. Oncotarget, 2017 Sep 8. PMID 28969024, Free PMC Article
  5. LINC00052 Promotes Gastric Cancer Cell Proliferation and Metastasis via Activating the Wnt/β-Catenin Signaling Pathway. Shan Y, et al. Oncol Res, 2017 Nov 2. PMID 28337962, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Long Non-Coding RNA LINC00052 Targets miR-548p/Notch2/Pyk2 to Modulate Tumor Budding and Metastasis of Human Breast Cancer.
    Title: Long Non-Coding RNA LINC00052 Targets miR-548p/Notch2/Pyk2 to Modulate Tumor Budding and Metastasis of Human Breast Cancer.
  2. LINC00052 ameliorates acute kidney injury by sponging miR-532-3p and activating the Wnt signaling pathway.
    Title: LINC00052 ameliorates acute kidney injury by sponging miR-532-3p and activating the Wnt signaling pathway.
  3. Long noncoding RNA LINC00052 suppressed the proliferation, migration and invasion of glioma cells by upregulating KLF6.
    Title: Long noncoding RNA LINC00052 suppressed the proliferation, migration and invasion of glioma cells by upregulating KLF6.
  4. tumor spheroids can induce changes in the transcriptome of cultured cells, including deregulation of linc00052 in breast cancer
    Title: Changes in the transcriptome profile of breast cancer cells grown as spheroids.
  5. our data indicated that the LINC00052 also remarkably suppressed pancreatic tumor growth via modulating miR-330-3p in vivo
    Title: LINC00052 functions as a tumor suppressor through negatively modulating miR-330-3p in pancreatic cancer.
  6. Study found a positive relationship between LINC00052 and miR-101-3p, and a negative relationship between miR-101-3p and SOX9 in hepatocellular carcinoma (HCC) tissues. Besides, miR-101-3p was involved in LINC00052 inhibiting HCC cells proliferation and metastasis. At the molecular level, LINC00052 downgulated SOX9 to inhibit HCC cells proliferation and metastasis by interacting with miR-101-3p.
    Title: LINC00052/miR-101-3p axis inhibits cell proliferation and metastasis by targeting SOX9 in hepatocellular carcinoma.
  7. Authors found that LINC00052 promoted proliferation and metastasis, possibly by activation of the Wnt/beta-catenin pathway.
    Title: LINC00052 Promotes Gastric Cancer Cell Proliferation and Metastasis via Activating the Wnt/β-Catenin Signaling Pathway.
  8. High LINC00052 levels predict activation of HER3-mediated signaling, promoting breast cancer growth.
    Title: HER3 and LINC00052 interplay promotes tumor growth in breast cancer.
  9. LINC00052 could regulate NTRK3 expression by forming complementary base pairing with miR-128 and miR-485-3p to reduce the luciferase activity of NTRK3 3'UTR.
    Title: LINC00052 regulates the expression of NTRK3 by miR-128 and miR-485-3p to strengthen HCC cells invasion and migration.
Submit: New GeneRIF Correction

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Evidence for shared genetic risk between methamphetamine-induced psychosis and schizophrenia.
EBI GWAS Catalog

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

Go to the top of the page Help

Markers

Other Names

  • transmembrane protein 83

Clone Names

  • FLJ31461

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_026869.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK056023, BC066551
    Related
    ENST00000560153.2

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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    87576929..87579686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    85331488..85334245
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_152454.1: Suppressed sequence

    Description
    NM_152454.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96N35.1 GenPept UniProtKB/Swiss-Prot:Q96N35

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Miscellaneous