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LINC00472 long intergenic non-protein coding RNA 472 [ Homo sapiens (human) ]

Gene ID: 79940, updated on 15-Oct-2024

Summary

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Official Symbol
LINC00472provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 472provided by HGNC
Primary source
HGNC:HGNC:21380
See related
Ensembl:ENSG00000233237 MIM:620059; AllianceGenome:HGNC:21380
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
P53RRA; C6orf155
Expression
Broad expression in kidney (RPKM 3.8), thyroid (RPKM 2.0) and 20 other tissues See more
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Genomic context

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See LINC00472 in Genome Data Viewer
Location:
6q13
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (71407864..71420745, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (72588358..72601239, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (72117567..72130448, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene microRNA 30c-2 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:72111792-72112320 Neighboring gene microRNA 30a Neighboring gene long intergenic non-protein coding RNA 1626 Neighboring gene uncharacterized LOC105377853

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. LINC00472 suppresses oral squamous cell carcinoma growth by targeting miR-455-3p/ELF3 axis. Liu X, et al. Bioengineered, 2022 Jan. PMID 35258410, Free PMC Article
  2. Prognostic and predictive values of long non-coding RNA LINC00472 in breast cancer. Shen Y, et al. Oncotarget, 2015 Apr 20. PMID 25865225, Free PMC Article
  3. Gene expression profiling after LINC00472 overexpression in an NSCLC cell line1. Seo D, et al. Cancer Biomark, 2021. PMID 34397405
  4. LINC00472 expression is regulated by promoter methylation and associated with disease-free survival in patients with grade 2 breast cancer. Shen Y, et al. Breast Cancer Res Treat, 2015 Dec. PMID 26564482, Free PMC Article
  5. LncRNA LINC00472 regulates cell stiffness and inhibits the migration and invasion of lung adenocarcinoma by binding to YBX1. Deng X, et al. Cell Death Dis, 2020 Nov 3. PMID 33144579, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LINC00472 suppresses non-small cell lung cancer progression via regulating miR-23a-3p/CCL22 axis.
    Title: LINC00472 suppresses non-small cell lung cancer progression via regulating miR-23a-3p/CCL22 axis.
  2. LINC00472 suppresses oral squamous cell carcinoma growth by targeting miR-455-3p/ELF3 axis.
    Title: LINC00472 suppresses oral squamous cell carcinoma growth by targeting miR-455-3p/ELF3 axis.
  3. Long non-coding RNA LINC00472 inhibits oral squamous cell carcinoma via miR-4311/GNG7 axis.
    Title: Long non-coding RNA LINC00472 inhibits oral squamous cell carcinoma via miR-4311/GNG7 axis.
  4. LINC00472 suppressed by ZEB1 regulates the miR-23a-3p/FOXO3/BID axis to inhibit the progression of pancreatic cancer.
    Title: LINC00472 suppressed by ZEB1 regulates the miR-23a-3p/FOXO3/BID axis to inhibit the progression of pancreatic cancer.
  5. Gene expression profiling after LINC00472 overexpression in an NSCLC cell line1.
    Title: Gene expression profiling after LINC00472 overexpression in an NSCLC cell line1.
  6. LncRNA LINC00472 regulates cell stiffness and inhibits the migration and invasion of lung adenocarcinoma by binding to YBX1.
    Title: LncRNA LINC00472 regulates cell stiffness and inhibits the migration and invasion of lung adenocarcinoma by binding to YBX1.
  7. LINC00472 promotes osteogenic differentiation and alleviates osteoporosis by sponging miR-300 to upregulate the expression of FGFR2.
    Title: LINC00472 promotes osteogenic differentiation and alleviates osteoporosis by sponging miR-300 to upregulate the expression of FGFR2.
  8. Down-regulation of long noncoding RNA LINC00472 alleviates sepsis-induced acute hepatic injury by regulating miR-373-3p/TRIM8 axis.
    Title: Down-regulation of long noncoding RNA LINC00472 alleviates sepsis-induced acute hepatic injury by regulating miR-373-3p/TRIM8 axis.
  9. LINC00472 suppressed proliferation, migration and invasion of hepatocellular carcinoma cells. MiR-93-5p was a direct target of LINC00472, and miR-93-5p directly targeted PDCD4. The miR-93-5p/PDCD4 pathway mediated the suppressing role of LINC00472 in hepatocellular carcinoma cells. As an important tumor suppressor, LINC00472 could be used as a bio-marker for HCC therapy.
    Title: Long non-coding RNA LINC00472 suppresses hepatocellular carcinoma cell proliferation, migration and invasion through miR-93-5p/PDCD4 pathway.
  10. Dysregulated expression of LINC00472 in atrial fibrillation patients could up-regulate the expression of miR-24, a competing endogenous RNA of LINC00472, resulting in the deregulation of JP2 and RyR2, which may contribute to the pathogenesis of AF.
    Title: LncRNA-LINC00472 contributes to the pathogenesis of atrial fibrillation (Af) by reducing expression of JP2 and RyR2 via miR-24.
Submit: New GeneRIF Correction See all GeneRIFs (16)

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

Other Names

  • p53 related lncRNA

Clone Names

  • FLJ13189

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_026807.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site at an internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AI808466, AK023251, AL035467, AW274058
    Related
    ENST00000651660.1

  2. NR_121612.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AI985403, AK023251, AL035467

  3. NR_121613.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate internal exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AK023251, AL035467, CD674415

  4. NR_121614.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an alternate internal exon and uses an alternate splice site, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AI498652, AK023251, AL035467

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    71407864..71420745 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    72588358..72601239 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9H8W2.2 GenPept UniProtKB/Swiss-Prot:Q9H8W2

Gene LinkOut

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Chemical Information
Molecular Biology Databases
Research Materials