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LINC02398 long intergenic non-protein coding RNA 2398 [ Homo sapiens (human) ]

Gene ID: 100506393, updated on 10-Oct-2023

Summary

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Official Symbol
LINC02398provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2398provided by HGNC
Primary source
HGNC:HGNC:53325
See related
Ensembl:ENSG00000256287 AllianceGenome:HGNC:53325
Gene type
ncRNA
RefSeq status
PREDICTED
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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Location:
12p12.2
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (20014685..20098868)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (19893076..19977281)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (20167619..20251802)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903095 Neighboring gene CAGE-defined high expression enhancer 1 downstream of TCP1P3 Neighboring gene t-complex 1 pseudogene 3 Neighboring gene CAGE-defined high expression enhancer 2 downstream of TCP1P3 Neighboring gene uncharacterized LOC124902893 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:20188644-20188839 Neighboring gene uncharacterized LOC105369685 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:20267735-20268236 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:20268237-20268736 Neighboring gene long intergenic non-protein coding RNA 2468 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6085 Neighboring gene uncharacterized LOC105369686 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr12:20365093-20365834

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. A genome-wide association study identifies susceptibility loci for ossification of the posterior longitudinal ligament of the spine. Nakajima M, et al. Nat Genet, 2014 Sep. PMID 25064007
  2. Genetic variants associated with cardiac structure and function: a meta-analysis and replication of genome-wide association data. Vasan RS, et al. JAMA, 2009 Jul 8. PMID 19584346, 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
A genome-wide association study identifies susceptibility loci for ossification of the posterior longitudinal ligament of the spine.
EBI GWAS Catalog
Genetic variants associated with cardiac structure and function: a meta-analysis and replication of genome-wide association data.
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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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_040098.1 RNA Sequence

    Status: PREDICTED

    Source sequence(s)
    AC087237, AC126468
    Related
    ENST00000536666.1

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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    20014685..20098868
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    19893076..19977281
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases