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LINC01541 long intergenic non-protein coding RNA 1541 [ Homo sapiens (human) ]

Gene ID: 100505776, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01541provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1541provided by HGNC
Primary source
HGNC:HGNC:51309
See related
Ensembl:ENSG00000260676 AllianceGenome:HGNC:51309
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
UTAT39
Expression
Restricted expression toward endometrium (RPKM 9.9) See more
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Genomic context

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Location:
18q22.3
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (71519964..71578956, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (71741543..71800600, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (69187200..69246192, complement)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372188 Neighboring gene uncharacterized LOC105372187 Neighboring gene signal peptide peptidase like 3 pseudogene Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_49614 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_49625 Neighboring gene NANOG hESC enhancer GRCh37_chr18:68970695-68971352 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr18:68971933-68972632 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_49782 Neighboring gene uncharacterized LOC107985179 Neighboring gene uncharacterized LOC105372186 Neighboring gene long intergenic non-protein coding RNA 1899 Neighboring gene uncharacterized LOC105376873

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. LINC01541 overexpression attenuates the 17β-Estradiol-induced migration and invasion capabilities of endometrial stromal cells. Mai H, et al. Syst Biol Reprod Med, 2019 Jun. PMID 30608887
  2. LINC01541 Functions as a ceRNA to Modulate the Wnt/β-Catenin Pathway by Decoying miR-506-5p in Endometriosis. Mai H, et al. Reprod Sci, 2021 Mar. PMID 32833189
  3. A protein interaction framework for human mRNA degradation. Lehner B, et al. Genome Res, 2004 Jul. PMID 15231747, Free PMC Article
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LINC01541 Functions as a ceRNA to Modulate the Wnt/beta-Catenin Pathway by Decoying miR-506-5p in Endometriosis.
    Title: LINC01541 Functions as a ceRNA to Modulate the Wnt/β-Catenin Pathway by Decoying miR-506-5p in Endometriosis.
  2. silencing attenuated apoptosis and promoted the epithelial-mesenchymal transition of endometrial stromal cells
    Title: LINC01541 overexpression attenuates the 17β-Estradiol-induced migration and invasion capabilities of endometrial stromal cells.
Submit: New GeneRIF Correction

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Other Names

  • uterine endometrial carcinoma-associated transcript 39

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_038325.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC019240, BX648957
    Related
    ENST00000568095.5

  2. NR_038326.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two internal exons, compared to variant 1.
    Source sequence(s)
    AC019240, AK093976, BX648957
    Related
    ENST00000566582.1

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_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    71519964..71578956 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    71741543..71800600 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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