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    LINC00342 long intergenic non-protein coding RNA 342 [ Homo sapiens (human) ]

    Gene ID: 150759, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC00342provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 342provided by HGNC
    Primary source
    HGNC:HGNC:42470
    See related
    AllianceGenome:HGNC:42470
    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
    NCRNA00342
    Summary
    Biomarker of Huntington's disease. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in testis (RPKM 5.1), bone marrow (RPKM 3.3) and 23 other tissues See more
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    Genomic context

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    See LINC00342 in Genome Data Viewer
    Location:
    2q11.1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (95807052..95826981, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (96504222..96524153)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (96472800..96492729, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101926959 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:96349017-96349517 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:96420911-96421411 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:96427757-96428671 Neighboring gene MPRA-validated peak3793 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:96444078-96444634 Neighboring gene glycerol-3-phosphate acyltransferase 2, mitochondrial Neighboring gene glycerol-3-phosphate acyltransferase 2 pseudogene 1 Neighboring gene ankyrin repeat domain 36C Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11743 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11744 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11745 Neighboring gene RNA, 7SL, cytoplasmic 210, 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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. [LncRNA LINC00342 regulates gastric cancer cell proliferation, migration and invasion by targeting miR-596].
      Title: [LncRNA LINC00342 regulates gastric cancer cell proliferation, migration and invasion by targeting miR-596].
    2. [Biological function and clinical significance of long non-coding RNA LINC00342 in head and neck squamous carcinoma].
      Title: [Biological function and clinical significance of long non-coding RNA LINC00342 in head and neck squamous carcinoma].
    3. LINC00342 induces metastasis of lung adenocarcinoma by targeting miR-15b/TPBG.
      Title: LINC00342 induces metastasis of lung adenocarcinoma by targeting miR-15b/TPBG.
    4. LncRNA LINC00342 promotes gastric cancer progression by targeting the miR-545-5p/CNPY2 axis.
      Title: LncRNA LINC00342 promotes gastric cancer progression by targeting the miR-545-5p/CNPY2 axis.
    5. LncRNA LINC00342 regulated cell growth and metastasis in non-small cell lung cancer via targeting miR-203a-3p.
      Title: LncRNA LINC00342 regulated cell growth and metastasis in non-small cell lung cancer via targeting miR-203a-3p.
    6. LINC00342 is involved in the development, and LINC00342 may be a potential diagnostic factor and a target for new therapies for future patients with non-small cell lung cancer.
      Title: Investigation of LINC00342 as a poor prognostic biomarker for human patients with non-small cell lung cancer.
    7. LINC00342 was over-expressed in colon adenocarcinoma (COAD) tissues and was related to the poor prognosis. LINC00342 knockdown inhibited cell proliferation, migration and invasion and promoted apoptosis of COAD cells. LINC00342 targeted to miR-545-5p/ MDM2 in COAD. In COAD tissues and cell lines, LINC00342 expression was positively correlated to MDM2 expression, while it was negatively correlated to miR-545-5p expression.
      Title: LINC00342 regulates cell proliferation, apoptosis, migration and invasion in colon adenocarcinoma via miR-545-5p/MDM2 axis.
    8. Long noncoding RNA LINC00342 promotes growth of infantile hemangioma by sponging miR-3619-5p from HDGF.
      Title: Long noncoding RNA LINC00342 promotes growth of infantile hemangioma by sponging miR-3619-5p from HDGF.
    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Clone Names

    • AC008268.3, DKFZp762C074

    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_103734.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC008268

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      95807052..95826981 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      96504222..96524153
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_175853.2: Suppressed sequence

      Description
      NM_175853.2: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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