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LINC00839 long intergenic non-protein coding RNA 839 [ Homo sapiens (human) ]

Gene ID: 84856, updated on 30-Oct-2023

Summary

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Official Symbol
LINC00839provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 839provided by HGNC
Primary source
HGNC:HGNC:28269
See related
Ensembl:ENSG00000185904 AllianceGenome:HGNC:28269
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Biased expression in kidney (RPKM 3.9), brain (RPKM 2.5) and 12 other tissues See more
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Genomic context

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Location:
10q11.21
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (42475491..42495337)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (43353031..43372883)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (42970939..42990785)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene zinc finger protein 91 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3276 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3277 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3278 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3279 Neighboring gene cyclin Y like 2 (pseudogene) Neighboring gene zinc finger protein 37B, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43034693-43035194 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43035195-43035694 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:43047054-43047592 Neighboring gene FXYD domain containing ion transport regulator 6 pseudogene 1

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. LINC00839 promotes colorectal cancer progression by recruiting RUVBL1/Tip60 complexes to activate NRF1. Liu X, et al. EMBO Rep, 2022 Sep 5. PMID 35876654, Free PMC Article
  2. METTL3-mediated m6A modification of LINC00839 maintains glioma stem cells and radiation resistance by activating Wnt/β-catenin signaling. Yin J, et al. Cell Death Dis, 2023 Jul 12. PMID 37438359, Free PMC Article
  3. LINC00839 promotes malignancy of liver cancer via binding FMNL2 under hypoxia. Xie Y, et al. Sci Rep, 2022 Nov 5. PMID 36335129, Free PMC Article
  4. [Effects of LINC00839 targeting miR-3666 on proliferation, migration and invasion of hepatocellular carcinoma cells]. Meng B, et al. Zhonghua Zhong Liu Za Zhi, 2021 Nov 23. PMID 34794216
  5. LINC00839/miR-519d-3p/JMJD6 axis modulated cell viability, apoptosis, migration and invasiveness of lung cancer cells. Yu X, et al. Folia Histochem Cytobiol, 2021. PMID 34734406

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. EGR1/LINC00839/SOX5 axis modulates migration, invasion and Gemcitabine resistance of bladder cancer cells.
    Title: EGR1/LINC00839/SOX5 axis modulates migration, invasion and Gemcitabine resistance of bladder cancer cells.
  2. m6A-enriched lncRNA LINC00839 promotes tumor progression by enhancing TAF15-mediated transcription of amine oxidase AOC1 in nasopharyngeal carcinoma.
    Title: m6A-enriched lncRNA LINC00839 promotes tumor progression by enhancing TAF15-mediated transcription of amine oxidase AOC1 in nasopharyngeal carcinoma.
  3. METTL3-mediated m6A modification of LINC00839 maintains glioma stem cells and radiation resistance by activating Wnt/beta-catenin signaling.
    Title: METTL3-mediated m6A modification of LINC00839 maintains glioma stem cells and radiation resistance by activating Wnt/β-catenin signaling.
  4. LINC00839 promotes malignancy of liver cancer via binding FMNL2 under hypoxia.
    Title: LINC00839 promotes malignancy of liver cancer via binding FMNL2 under hypoxia.
  5. LINC00839 promotes colorectal cancer progression by recruiting RUVBL1/Tip60 complexes to activate NRF1.
    Title: LINC00839 promotes colorectal cancer progression by recruiting RUVBL1/Tip60 complexes to activate NRF1.
  6. LINC00839 Promotes Neuroblastoma Progression by Sponging miR-454-3p to Up-Regulate NEUROD1.
    Title: LINC00839 Promotes Neuroblastoma Progression by Sponging miR-454-3p to Up-Regulate NEUROD1.
  7. LINC00839/miR-519d-3p/JMJD6 axis modulated cell viability, apoptosis, migration and invasiveness of lung cancer cells.
    Title: LINC00839/miR-519d-3p/JMJD6 axis modulated cell viability, apoptosis, migration and invasiveness of lung cancer cells.
  8. [Effects of LINC00839 targeting miR-3666 on proliferation, migration and invasion of hepatocellular carcinoma cells].
    Title: [Effects of LINC00839 targeting miR-3666 on proliferation, migration and invasion of hepatocellular carcinoma cells].
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

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_026827.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK092104, AK293138, AL391099, BC007394, CK903828
    Related
    ENST00000429940.7

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    42475491..42495337
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    43353031..43372883
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_032770.3: Suppressed sequence

    Description
    NM_032770.3: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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