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LINC00189 long intergenic non-protein coding RNA 189 [ Homo sapiens (human) ]

Gene ID: 193629, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00189provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 189provided by HGNC
Primary source
HGNC:HGNC:18461
See related
Ensembl:ENSG00000215533 AllianceGenome:HGNC:18461
Gene type
ncRNA
RefSeq status
PREDICTED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C21orf109; NCRNA00189
Expression
Broad expression in placenta (RPKM 1.2), heart (RPKM 0.5) and 16 other tissues See more
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Genomic context

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See LINC00189 in Genome Data Viewer
Location:
21q21.3
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (29193494..29288205)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (27559756..27654119)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (30565815..30660526)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene MAP3K7 C-terminal like Neighboring gene NANOG hESC enhancer GRCh37_chr21:30506062-30506608 Neighboring gene ribosomal protein L12 pseudogene 9 Neighboring gene Sharpr-MPRA regulatory region 14833 Neighboring gene uncharacterized LOC105372767 Neighboring gene small nucleolar RNA U3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18341 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr21:30568347-30569546 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18343 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18344 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18345 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18346 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene 14 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18347 Neighboring gene uncharacterized LOC124905007 Neighboring gene uncharacterized LOC105369299 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13238 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18348 Neighboring gene Sharpr-MPRA regulatory region 12458 Neighboring gene BTB domain and CNC homolog 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:30714441-30715640

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. Genome-wide association study for biomarker identification of Rapamycin and Everolimus using a lymphoblastoid cell line system. Jiang J, et al. Front Genet, 2013. PMID 24009623, Free PMC Article
  2. Annotation of human chromosome 21 for relevance to Down syndrome: gene structure and expression analysis. Gardiner K, et al. Genomics, 2002 Jun. PMID 12036298
  3. LGALS3BP regulates centriole biogenesis and centrosome hypertrophy in cancer cells. Fogeron ML, et al. Nat Commun, 2013. PMID 23443559
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

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
Genome-wide association study for biomarker identification of Rapamycin and Everolimus using a lymphoblastoid cell line system.
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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Potential readthrough

Included gene: BACH1

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_027072.2 RNA Sequence

    Status: PREDICTED

    Source sequence(s)
    BC065252
    Related
    ENST00000420364.1

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_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    29193494..29288205
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_025791813.1 Reference GRCh38.p14 PATCHES

    Range
    287385..288152
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    27559756..27654119
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_138968.1: Suppressed sequence

    Description
    NM_138968.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Chemical Information
Molecular Biology Databases