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LIMD1-AS1 LIMD1 antisense RNA 1 [ Homo sapiens (human) ]

Gene ID: 644714, updated on 17-Sep-2024

Summary

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Official Symbol
LIMD1-AS1provided by HGNC
Official Full Name
LIMD1 antisense RNA 1provided by HGNC
Primary source
HGNC:HGNC:44107
See related
AllianceGenome:HGNC:44107
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
Ubiquitous expression in lung (RPKM 27.5), thyroid (RPKM 14.7) and 25 other tissues See more
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Genomic context

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See LIMD1-AS1 in Genome Data Viewer
Location:
3p21.31
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (45678165..45688882, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (45694114..45704861, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (45719657..45730374, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377061 Neighboring gene uncharacterized LOC105377062 Neighboring gene NANOG hESC enhancer GRCh37_chr3:45387482-45388007 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14282 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:45430895-45431470 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:45434289-45435488 Neighboring gene MPRA-validated peak4627 silencer Neighboring gene leucyl-tRNA synthetase 2, mitochondrial Neighboring gene ReSE screen-validated silencer GRCh37_chr3:45534631-45534827 Neighboring gene LARS2 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:45549416-45550282 Neighboring gene Sharpr-MPRA regulatory region 486 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:45585473-45585699 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:45586492-45586702 Neighboring gene Sharpr-MPRA regulatory region 4333 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr3:45592715-45593914 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19777 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19778 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:45608597-45609123 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19779 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14284 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14283 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:45638615-45639114 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:45649345-45649845 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19780 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19781 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14285 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:45671459-45671960 Neighboring gene LIM domain containing 1 Neighboring gene Sharpr-MPRA regulatory region 10324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:45688585-45689086 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19782 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19783 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19784 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14286 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19785 Neighboring gene tRNA-Arg (anticodon ACG) 2-1 Neighboring gene SAC1 like phosphatidylinositide phosphatase Neighboring gene ReSE screen-validated silencer GRCh37_chr3:45769094-45769290 Neighboring gene RNA, 7SL, cytoplasmic 145, pseudogene

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. Algorithm-Based Meta-Analysis Reveals the Mechanistic Interaction of the Tumor Suppressor LIMD1 With Non-Small-Cell Lung Carcinoma. Wang L, et al. Front Oncol, 2021. PMID 33869018, Free PMC Article
  2. LIMD1-AS1 suppressed non-small cell lung cancer progression through stabilizing LIMD1 mRNA via hnRNP U. Pan J, et al. Cancer Med, 2020 Jun. PMID 32239804, Free PMC Article
  3. Super-enhancer-driven lncRNA LIMD1-AS1 activated by CDK7 promotes glioma progression. Chen Z, et al. Cell Death Dis, 2023 Jun 29. PMID 37385987, Free PMC Article
  4. Pharmacogenomic study of side-effects for antidepressant treatment options in STAR*D. Clark SL, et al. Psychol Med, 2012 Jun. PMID 22041458, Free PMC Article
  5. Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris. Navarini AA, et al. Nat Commun, 2014 Jun 13. PMID 24927181

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Super-enhancer-driven lncRNA LIMD1-AS1 activated by CDK7 promotes glioma progression.
    Title: Super-enhancer-driven lncRNA LIMD1-AS1 activated by CDK7 promotes glioma progression.
  2. LIMD1-AS1 suppressed non-small cell lung cancer progression through stabilizing LIMD1 mRNA via hnRNP U.
    Title: LIMD1-AS1 suppressed non-small cell lung cancer progression through stabilizing LIMD1 mRNA via hnRNP U.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris.
EBI GWAS Catalog
Pharmacogenomic study of side-effects for antidepressant treatment options in STAR*D.
EBI GWAS Catalog

Variation

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See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

General gene information

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Markers

Other Names

  • LIMD1 antisense RNA 1 (non-protein coding)

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_033947.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC098476, AK026206

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    45678165..45688882 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    45694114..45704861 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Chemical Information
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Research Materials