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LINC01543 long intergenic non-protein coding RNA 1543 [ Homo sapiens (human) ]

Gene ID: 100506787, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01543provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1543provided by HGNC
Primary source
HGNC:HGNC:51310
See related
AllianceGenome:HGNC:51310
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
Biased expression in kidney (RPKM 1.7) and testis (RPKM 0.3) See more
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Genomic context

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Location:
18q11.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (26422995..26438044)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (26617097..26632148)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (24002959..24018008)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene TATA-box binding protein associated factor 4b Neighboring gene RNA, U6 small nuclear 1289, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr18:23973056-23973249 Neighboring gene uncharacterized LOC107985142 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13183 Neighboring gene MPRA-validated peak3087 silencer Neighboring gene uncharacterized LOC124904274 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13184 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13185 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13186 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13187 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13188 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:24060471-24061670 Neighboring gene potassium channel tetramerization domain containing 1 Neighboring gene uncharacterized LOC124904273 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:24126836-24127820 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9372 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9373 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9374 Neighboring gene Sharpr-MPRA regulatory region 2175 Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:24128809-24129450 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:24129451-24130092 Neighboring gene Sharpr-MPRA regulatory region 221 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:24130735-24131376

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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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

General gene information

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Other Names

  • TCONS_00026302

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_110762.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC022069

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_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    26422995..26438044
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    26617097..26632148
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases