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LINC00836 long intergenic non-protein coding RNA 836 [ Homo sapiens (human) ]

Gene ID: 101929052, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00836provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 836provided by HGNC
Primary source
HGNC:HGNC:44915
See related
Ensembl:ENSG00000280809 AllianceGenome:HGNC:44915
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
Restricted expression toward brain (RPKM 1.3) See more
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Genomic context

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Location:
10p12.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (25651712..25732935)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (25676229..25757746)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (25940641..26021864)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor 158 Neighboring gene RN7SK pseudogene 220 Neighboring gene Sharpr-MPRA regulatory region 12818 Neighboring gene MPRA-validated peak912 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:25983020-25983520 Neighboring gene GPN-loop GTPase 3 pseudogene 1 Neighboring gene NANOG hESC enhancer GRCh37_chr10:26005209-26005710 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:26027519-26027690 Neighboring gene histone cell cycle regulator pseudogene 1 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr10:26055160-26055775 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:26063372-26063916 Neighboring gene RNA, 5S ribosomal pseudogene 306 Neighboring gene RNA, U6 small nuclear 632, pseudogene

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. Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers. Lauc G, et al. PLoS Genet, 2013. PMID 23382691, Free PMC Article
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
EBI GWAS Catalog

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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Clone Names

  • FLJ41446

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_108067.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AC018509, AK123440, DA169579, DA762562
    Related
    ENST00000671596.1

  2. NR_108068.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two internal exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC018509, AK123440, DA762562
    Related
    ENST00000626230.2

  3. NR_108069.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks three exons and contains two alternate 3' exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AK123440, BE856605, BF435290, BX100192, DA762562, W33193
    Related
    ENST00000628620.1

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    25651712..25732935
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    25676229..25757746
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Other Literature Sources
Molecular Biology Databases