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LINC01589 long intergenic non-protein coding RNA 1589 [ Homo sapiens (human) ]

Gene ID: 100506737, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01589provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1589provided by HGNC
Primary source
HGNC:HGNC:51520
See related
Ensembl:ENSG00000238120 AllianceGenome:HGNC:51520
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
TCONS_00029353
Expression
Biased expression in testis (RPKM 2.5), gall bladder (RPKM 0.9) and 13 other tissues See more
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Genomic context

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See LINC01589 in Genome Data Viewer
Location:
22q13.31
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (45604432..45605647, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (46089164..46090379, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (46000312..46001527, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:45895138-45895774 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr22:45899377-45899990 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr22:45899991-45900604 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:45900605-45901218 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:45901219-45901832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:45901833-45902444 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:45911021-45911955 Neighboring gene fibulin 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:45920127-45920678 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:45924419-45924969 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:45942415-45942916 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:45942917-45943416 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:45944251-45945038 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19228 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:45997202-45997774 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr22:46021696-46022895 Neighboring gene Sharpr-MPRA regulatory region 3085 Neighboring gene RNA, U6 small nuclear 1161, pseudogene Neighboring gene uncharacterized LOC105373069 Neighboring gene uncharacterized LOC105373067 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr22:46034441-46035640

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. The long noncoding RNA CTA-941F9.9 is frequently downregulated and may serve as a biomarker for carcinogenesis in colorectal cancer. Guo Z, et al. J Clin Lab Anal, 2019 Nov. PMID 31343781, Free PMC Article
  2. Long noncoding RNAs expression signatures in chondrogenic differentiation of human bone marrow mesenchymal stem cells. Wang L, et al. Biochem Biophys Res Commun, 2015 Jan 2. PMID 25482444
  3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

GeneRIFs: Gene References Into Functions

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

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_131244.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC045163, BQ188486
    Related
    ENST00000422971.1

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_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    45604432..45605647 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    46089164..46090379 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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