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LINC00473 long intergenic non-protein coding RNA 473 [ Homo sapiens (human) ]

Gene ID: 90632, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00473provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 473provided by HGNC
Primary source
HGNC:HGNC:21160
See related
Ensembl:ENSG00000112541 AllianceGenome:HGNC:21160
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
LNC473; C6orf176; bA142J11.1
Summary
Involved in transcription, DNA-templated. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in adrenal (RPKM 2.4), ovary (RPKM 1.0) and 10 other tissues See more
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Genomic context

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Location:
6q27
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (165924048..165988039, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (167292278..167356308, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (166337536..166401527, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene phosphodiesterase 10A Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:166140441-166141048 Neighboring gene RNA, U6 small nuclear 730, pseudogene Neighboring gene uncharacterized LOC124901458 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr6:166255604-166256584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:166256585-166257564 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25427 Neighboring gene LINC00602-GAPDHP72 intergenic CAGE-defined low expression enhancer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:166422185-166422887 Neighboring gene long intergenic non-protein coding RNA 602 Neighboring gene uncharacterized LOC105378117 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25428 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr6:166463835-166464517 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene 72

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. Expression of the primate-specific LINC00473 RNA in mouse neurons promotes excitability and CREB-regulated transcription. Pruunsild P, et al. J Biol Chem, 2023 May. PMID 37019214, Free PMC Article
  2. LINC00473 regulated apoptosis, proliferation and migration but could not reverse cell cycle arrest of human bone marrow mesenchymal stem cells induced by a high-dosage of dexamethasone. Xu Y, et al. Stem Cell Res, 2020 Oct. PMID 32829248
  3. LINC00473 functions as an oncogene and predicts poor prognosis in pancreatic cancer via the cAMP/β-catenin axis. Hao XF, et al. Eur Rev Med Pharmacol Sci, 2020 May. PMID 32495868
  4. Sex-Specific Role for the Long Non-coding RNA LINC00473 in Depression. Issler O, et al. Neuron, 2020 Jun 17. PMID 32304628, Free PMC Article
  5. LINC00473 promotes hepatocellular carcinoma progression via acting as a ceRNA for microRNA-195 and increasing HMGA2 expression. Mo J, et al. Biomed Pharmacother, 2019 Dec. PMID 31562977

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Expression of the primate-specific LINC00473 RNA in mouse neurons promotes excitability and CREB-regulated transcription.
    Title: Expression of the primate-specific LINC00473 RNA in mouse neurons promotes excitability and CREB-regulated transcription.
  2. Long Non-coding RNA LINC00473 Promotes Breast Cancer Progression via miR-424-5p/CCNE1 Pathway.
    Title: Long Non-coding RNA LINC00473 Promotes Breast Cancer Progression via miR-424-5p/CCNE1 Pathway.
  3. DNAJB1-PRKACA in HEK293T cells induces LINC00473 overexpression that depends on PKA signaling.
    Title: DNAJB1-PRKACA in HEK293T cells induces LINC00473 overexpression that depends on PKA signaling.
  4. Long intergenic noncoding RNA 00473 promoting migration and invasion of trophoblastic cell line HTR-8/SVneo via regulating miR-424-5p-mediated wnt3a/beta-catenin signaling pathway.
    Title: Long intergenic noncoding RNA 00473 promoting migration and invasion of trophoblastic cell line HTR-8/SVneo via regulating miR-424-5p-mediated wnt3a/β-catenin signaling pathway.
  5. LINC00473 regulated apoptosis, proliferation and migration but could not reverse cell cycle arrest of human bone marrow mesenchymal stem cells induced by a high-dosage of dexamethasone.
    Title: LINC00473 regulated apoptosis, proliferation and migration but could not reverse cell cycle arrest of human bone marrow mesenchymal stem cells induced by a high-dosage of dexamethasone.
  6. LINC00473 functions as an oncogene and predicts poor prognosis in pancreatic cancer via the cAMP/beta-catenin axis.
    Title: LINC00473 functions as an oncogene and predicts poor prognosis in pancreatic cancer via the cAMP/β-catenin axis.
  7. The long non-coding RNA LINC00473 contributes to cell proliferation via JAK-STAT3 signaling pathway by regulating miR-195-5p/SEPT2 axis in prostate cancer.
    Title: The long non-coding RNA LINC00473 contributes to cell proliferation via JAK-STAT3 signaling pathway by regulating miR-195-5p/SEPT2 axis in prostate cancer.
  8. Long noncoding RNA LINC00473/miR1955p promotes glioma progression via YAP1TEAD1Hippo signaling.
    Title: Long non‑coding RNA LINC00473/miR‑195‑5p promotes glioma progression via YAP1‑TEAD1‑Hippo signaling.
  9. Sex-Specific Role for the Long Non-coding RNA LINC00473 in Depression.
    Title: Sex-Specific Role for the Long Non-coding RNA LINC00473 in Depression.
  10. Long noncoding RNA LINC00473 indicates a poor prognosis of breast cancer and accelerates tumor carcinogenesis by competing endogenous sponging miR-497.
    Title: Long noncoding RNA LINC00473 indicates a poor prognosis of breast cancer and accelerates tumor carcinogenesis by competing endogenous sponging miR-497.
Submit: New GeneRIF Correction See all GeneRIFs (24)

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

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 

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_026860.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AK289375, AL132661, BC008632
    Related
    ENST00000455853.1

  2. NR_026861.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate exon in the 3' end, compared to variant 1.
    Source sequence(s)
    AL132661, AL590482, CB270066, DA416538

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    165924048..165988039 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    167292278..167356308 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A8K010.2 GenPept UniProtKB/Swiss-Prot:A8K010

Gene LinkOut

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

Molecular Biology Databases
Research Materials