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LINC02489 long intergenic non-protein coding RNA 2489 [ Homo sapiens (human) ]

Gene ID: 101928919, updated on 10-Oct-2023

Summary

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Official Symbol
LINC02489provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2489provided by HGNC
Primary source
HGNC:HGNC:53470
See related
AllianceGenome:HGNC:53470
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
Low expression observed in reference dataset See more
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Genomic context

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See LINC02489 in Genome Data Viewer
Location:
11p11.2
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (46254867..46274427, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (46410936..46430512, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2710 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4675 Neighboring gene translation initiation factor IF-2-like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3297 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3298 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3299 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr11:46263977-46264910 and GRCh37_chr11:46264911-46265844 Neighboring gene CRISPRi-validated cis-regulatory element chr11.2129 Neighboring gene cAMP responsive element binding protein 3 like 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46312695-46313398 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3301 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:46328063-46328758 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:46352624-46352765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4676 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3302 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46357769-46358498 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46360689-46361418 Neighboring gene Sharpr-MPRA regulatory region 11965 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4678 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4679 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3303 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:46369312-46369525 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46369839-46370824 Neighboring gene diacylglycerol kinase zeta Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46373336-46374190 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46374191-46375045 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46375046-46375899 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:46377222-46378090 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:46390736-46391935 Neighboring gene microRNA 4688

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. Long non-coding RNA CTA sensitizes osteosarcoma cells to doxorubicin through inhibition of autophagy. Wang Z, et al. Oncotarget, 2017 May 9. PMID 28415557, Free PMC Article

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 (GRCh38)

Genotypes

General gene information

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Other Names

  • CTD-2589M5.4

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_183622.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC116021

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    46254867..46274427 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    46410936..46430512 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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