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LINC01548 long intergenic non-protein coding RNA 1548 [ Homo sapiens (human) ]

Gene ID: 728409, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01548provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1548provided by HGNC
Primary source
HGNC:HGNC:1296
See related
AllianceGenome:HGNC:1296
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
C21orf54
Expression
Restricted expression toward testis (RPKM 5.2) See more
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Genomic context

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Location:
21q22.11
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (33165470..33170236, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (31534046..31538820, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (34537776..34542541, complement)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene oligodendrocyte transcription factor 1 Neighboring gene VISTA enhancer hs1346 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr21:34477251-34477777 Neighboring gene uncharacterized LOC101928107 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:34487678-34488212 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:34524357-34524877 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:34524878-34525397 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18367 Neighboring gene uncharacterized LOC105372787 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13249 Neighboring gene IFNAR2-IL10RB readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13250 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13251 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13252 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13253 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18368 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18369 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18370 Neighboring gene NANOG hESC enhancer GRCh37_chr21:34617736-34618335 Neighboring gene interferon alpha and beta receptor subunit 2 Neighboring gene IL10RB divergent transcript

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 of inflammatory biomarker changes in response to fenofibrate treatment in the Genetics of Lipid Lowering Drug and Diet Network. Aslibekyan S, et al. Pharmacogenet Genomics, 2012 Mar. PMID 22228203, Free PMC Article
  2. The DNA sequence of human chromosome 21. Hattori M, et al. Nature, 2000 May 18. PMID 10830953
  3. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
  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
A genome-wide association study of inflammatory biomarker changes in response to fenofibrate treatment in the Genetics of Lipid Lowering Drug and Diet Network.
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

Other Names

  • hCG2045804

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_024102.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC105115, BX116511

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
    33165470..33170236 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    31534046..31538820 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A6NM66.1 GenPept UniProtKB/Swiss-Prot:A6NM66

Gene LinkOut

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Chemical Information
Molecular Biology Databases
Research Materials