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LINC01348 long intergenic non-protein coding RNA 1348 [ Homo sapiens (human) ]

Gene ID: 731656, updated on 22-Oct-2024

Summary

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Official Symbol
LINC01348provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1348provided by HGNC
Primary source
HGNC:HGNC:50567
See related
Ensembl:ENSG00000280587 AllianceGenome:HGNC:50567
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 liver (RPKM 18.2) and duodenum (RPKM 1.2) See more
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Genomic context

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See LINC01348 in Genome Data Viewer
Location:
1q42.3
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (235065474..235069818, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (234456512..234460856, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 (PATCHES) NW_004070865.1 (34180..38524, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:235098512-235099711 Neighboring gene long intergenic non-protein coding RNA 2971 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2777 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2778 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1982 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1983 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2779 Neighboring gene lncRNA negative regulator of antiviral signaling Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:235115282-235115785 Neighboring gene long intergenic non-protein coding RNA 3108 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr1:235122747-235123286 and GRCh37_chr1:235122207-235122746 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:235123287-235123826 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:235133684-235134883 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2780 Neighboring gene Sharpr-MPRA regulatory region 4658 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2784 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2785 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2786 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2787 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2788 Neighboring gene Sharpr-MPRA regulatory region 5019 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2789 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:235191005-235191504 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2790 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:235245875-235246397 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:235256647-235257230 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2791 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1984 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2792 Neighboring gene translocase of outer mitochondrial membrane 20 Neighboring gene uncharacterized LOC105379283 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2793 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2794 Neighboring gene small nucleolar RNA, H/ACA box 14B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2795 Neighboring gene RNA binding motif protein 34 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:235322928-235323532 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:235323819-235325018

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. LINC01348 suppresses hepatocellular carcinoma metastasis through inhibition of SF3B3-mediated EZH2 pre-mRNA splicing. Lin YH, et al. Oncogene, 2021 Jul. PMID 34140643
  2. Insight into hepatocellular carcinogenesis at transcriptome level by comparing gene expression profiles of hepatocellular carcinoma with those of corresponding noncancerous liver. Xu XR, et al. Proc Natl Acad Sci U S A, 2001 Dec 18. PMID 11752456, Free PMC Article
  3. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. Adams MD, et al. Nature, 1995 Sep 28. PMID 7566098
  4. Generation and analysis of 280,000 human expressed sequence tags. Hillier LD, et al. Genome Res, 1996 Sep. PMID 8889549
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LINC01348 suppresses hepatocellular carcinoma metastasis through inhibition of SF3B3-mediated EZH2 pre-mRNA splicing.
    Title: LINC01348 suppresses hepatocellular carcinoma metastasis through inhibition of SF3B3-mediated EZH2 pre-mRNA splicing.
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)

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_027454.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AA345641, AV652367, AV719684, BX100191, DA457760, DB348942, W90538
    Related
    ENST00000723723.1

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    235065474..235069818 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    234456512..234460856 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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