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    SNHG16 small nucleolar RNA host gene 16 [ Homo sapiens (human) ]

    Gene ID: 100507246, updated on 22-Oct-2024

    Summary

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    Official Symbol
    SNHG16provided by HGNC
    Official Full Name
    small nucleolar RNA host gene 16provided by HGNC
    Primary source
    HGNC:HGNC:44352
    See related
    Ensembl:ENSG00000163597 AllianceGenome:HGNC:44352
    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
    ncRAN; ELNAT1; Nbla10727; Nbla12061
    Expression
    Ubiquitous expression in ovary (RPKM 13.9), skin (RPKM 12.2) and 25 other tissues See more
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    Genomic context

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    See SNHG16 in Genome Data Viewer
    Location:
    17q25.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (76557764..76565348)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (77454512..77462094)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (74553846..74561430)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74469380-74469890 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9018 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9019 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9020 Neighboring gene Sharpr-MPRA regulatory region 10531 Neighboring gene rhomboid 5 homolog 2 Neighboring gene MPRA-validated peak3008 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74487839-74488704 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74496763-74497432 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12809 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:74506318-74506528 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74508911-74509513 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:74518115-74518272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12810 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74525989-74526722 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74526723-74527456 Neighboring gene cytoglobin Neighboring gene photoreceptor disc component Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74543392-74543895 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12811 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74553466-74554266 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74554267-74555068 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:74562840-74563340 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:74563341-74563841 Neighboring gene testis-specific serine/proline-rich protein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74565599-74566100 Neighboring gene ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 2 Neighboring gene small nucleolar RNA, C/D box 1C Neighboring gene small nucleolar RNA, C/D box 1B Neighboring gene small nucleolar RNA, C/D box 1A Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74582247-74582928 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74582929-74583609 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr17:74597314-74598513 Neighboring gene NANOG hESC enhancer GRCh37_chr17:74602073-74602593 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr17:74607181-74607687 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74608196-74608702 Neighboring gene ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74623019-74623520

    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 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. SNGH16 regulates cell autophagy to promote Sorafenib Resistance through suppressing miR-23b-3p via sponging EGR1 in hepatocellular carcinoma. Jing Z, et al. Cancer Med, 2020 Jun. PMID 32324343, Free PMC Article
    2. lncRNA SNHG16 Mediates Cell Proliferation and Apoptosis in Cholangiocarcinoma by Directly Targeting miR-146a-5p/GATA6 Axis. Wu T, et al. Biochem Genet, 2021 Oct. PMID 33797690
    3. SUMOylation promotes extracellular vesicle-mediated transmission of lncRNA ELNAT1 and lymph node metastasis in bladder cancer. Chen C, et al. J Clin Invest, 2021 Apr 15. PMID 33661764, Free PMC Article
    4. LncRNA SNHG16 Functions as an Oncogene by Sponging MiR-4518 and Up-Regulating PRMT5 Expression in Glioma. Lu YF, et al. Cell Physiol Biochem, 2018. PMID 29529599
    5. Decreased lncRNA SNHG16 Accelerates Oxidative Stress Induced Pathological Angiogenesis in Human Retinal Microvascular Endothelial Cells by Regulating miR-195/mfn2 Axis. Zhang R, et al. Curr Pharm Des, 2021. PMID 33530902

    See all (98) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The MEF2A/SNHG16/miR-425-5p/NOTCH2 axis induces gemcitabine resistance by inhibiting ferroptosis in the starving bladder tumor microenvironment.
      Title: The MEF2A/SNHG16/miR-425-5p/NOTCH2 axis induces gemcitabine resistance by inhibiting ferroptosis in the starving bladder tumor microenvironment.
    2. LncRNA SNHG16 accelerates atherosclerosis and promotes ox-LDL-induced VSMC growth via the miRNA-22-3p/HMGB2 axis.
      Title: LncRNA SNHG16 accelerates atherosclerosis and promotes ox-LDL-induced VSMC growth via the miRNA-22-3p/HMGB2 axis.
    3. Roles of long non-coding RNA SNHG16 in human digestive system cancer (Review).
      Title: Roles of long non‑coding RNA SNHG16 in human digestive system cancer (Review).
    4. Hypoxia Induces Tumor-Derived Exosome SNHG16 to Mediate Nasopharyngeal Carcinoma Progression through the miR-23b-5p/MCM6 Pathway.
      Title: Hypoxia Induces Tumor-Derived Exosome SNHG16 to Mediate Nasopharyngeal Carcinoma Progression through the miR-23b-5p/MCM6 Pathway.
    5. LncRNA SNHG16 Knockdown Promotes Diabetic Foot Ulcer Wound Healing via Sponging MiR-31-5p.
      Title: LncRNA SNHG16 Knockdown Promotes Diabetic Foot Ulcer Wound Healing via Sponging MiR-31-5p.
    6. Cuproptosis-related lncRNA SNHG16 as a biomarker for the diagnosis and prognosis of head and neck squamous cell carcinoma.
      Title: Cuproptosis-related lncRNA SNHG16 as a biomarker for the diagnosis and prognosis of head and neck squamous cell carcinoma.
    7. The value of urinary exosomal lncRNA SNHG16 as a diagnostic biomarker for bladder cancer.
      Title: The value of urinary exosomal lncRNA SNHG16 as a diagnostic biomarker for bladder cancer.
    8. Tumour-derived exosomal lncRNA SNHG16 induces telocytes to promote metastasis of hepatocellular carcinoma via the miR-942-3p/MMP9 axis.
      Title: Tumour-derived exosomal lncRNA SNHG16 induces telocytes to promote metastasis of hepatocellular carcinoma via the miR-942-3p/MMP9 axis.
    9. LncRNA SNHG16 regulates RAS and NF-kappaB pathway-mediated NLRP3 inflammasome activation to aggravate diabetes nephropathy through stabilizing TLR4.
      Title: LncRNA SNHG16 regulates RAS and NF-κB pathway-mediated NLRP3 inflammasome activation to aggravate diabetes nephropathy through stabilizing TLR4.
    10. Knockdown of lncRNA SNHG16 Attenuates the Proliferation and Radioresistance of Nasopharyngeal Carcinoma Cells by Mediating miR-31-5p/SFN Axis.
      Title: Knockdown of lncRNA SNHG16 Attenuates the Proliferation and Radioresistance of Nasopharyngeal Carcinoma Cells by Mediating miR-31-5p/SFN Axis.
    Submit: New GeneRIF Correction See all GeneRIFs (92)

    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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    Markers

    Other Names

    • EV-mediated LN-associated transcript 1
    • non-coding RNA expressed in aggressive neuroblastoma
    • small nucleolar RNA host gene 16 (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_038108.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AC015802
      Related
      ENST00000653677.3

    2. NR_038109.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses a different splice site in the 3' end, compared to variant 1.
      Source sequence(s)
      AC015802
      Related
      ENST00000670737.4

    3. NR_038110.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate segment in the 5' end, compared to variant 1.
      Source sequence(s)
      AC015802
      Related
      ENST00000493536.8

    4. NR_038111.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate segment in the 5' end and uses a different splice site in the 3' end, compared to variant 1.
      Source sequence(s)
      AC015802
      Related
      ENST00000661348.4

    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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      76557764..76565348
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      77454512..77462094
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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