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SNHG33 small nucleolar RNA host gene 33 [ Homo sapiens (human) ]

Gene ID: 100505687, updated on 10-Oct-2023

Summary

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Official Symbol
SNHG33provided by HGNC
Official Full Name
small nucleolar RNA host gene 33provided by HGNC
Primary source
HGNC:HGNC:48575
See related
Ensembl:ENSG00000291106 AllianceGenome:HGNC:48575
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
PAINT; LINC00888
Expression
Broad expression in adrenal (RPKM 8.9), brain (RPKM 6.5) and 24 other tissues See more
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Genomic context

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See SNHG33 in Genome Data Viewer
Location:
3q27.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (183447608..183456013)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (186255025..186263433)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (183165396..183173801)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene MCF.2 cell line derived transforming sequence-like 2 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr3:182980890-182981594 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:182983517-182984716 Neighboring gene RNA, 5S ribosomal pseudogene 151 Neighboring gene UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 5 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:183003113-183004312 Neighboring gene uncharacterized LOC107986160 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:183014350-183015174 Neighboring gene Sharpr-MPRA regulatory region 12547 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14938 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14939 Neighboring gene NANOG hESC enhancer GRCh37_chr3:183118178-183118679 Neighboring gene Sharpr-MPRA regulatory region 15184 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14940 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:183152219-183153159 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:183165063-183165598 Neighboring gene small nucleolar RNA SNORA81 Neighboring gene small nucleolar RNA, H/ACA box 63D Neighboring gene small nucleolar RNA, H/ACA box 63E Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:183195987-183196522 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20889 Neighboring gene TVP23C pseudogene 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:183216746-183216942 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:183225616-183226815 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20890 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20891 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:183236404-183236904 Neighboring gene kelch like family member 6 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20892 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20893 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20894 Neighboring gene KLHL6 antisense RNA 1

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. LncRNA LINC00888 upregulation predicts a worse survival of laryngeal cancer patients and accelerates the growth and mobility of laryngeal cancer cells through regulation of miR-378g/TFRC. Cui P, et al. J Biochem Mol Toxicol, 2021 Oct. PMID 34472153
  2. LncRNA PAINT is associated with aggressive prostate cancer and dysregulation of cancer hallmark genes. Hasan MF, et al. Int J Cancer, 2021 Mar 17. PMID 33729568, Free PMC Article
  3. Long-chain non-coding RNA Linc00888 promotes the proliferation and migration of esophageal cancer cells by downregulating miR-34a expression. Zang HL, et al. Eur Rev Med Pharmacol Sci, 2020 Nov. PMID 33215424
  4. Characterization of long noncoding RNA and messenger RNA signatures in melanoma tumorigenesis and metastasis. Wang S, et al. PLoS One, 2017. PMID 28225791, Free PMC Article
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. LncRNA LINC00888 upregulation predicts a worse survival of laryngeal cancer patients and accelerates the growth and mobility of laryngeal cancer cells through regulation of miR-378g/TFRC.
    Title: LncRNA LINC00888 upregulation predicts a worse survival of laryngeal cancer patients and accelerates the growth and mobility of laryngeal cancer cells through regulation of miR-378g/TFRC.
  2. Long-chain non-coding RNA Linc00888 promotes the proliferation and migration of esophageal cancer cells by downregulating miR-34a expression.
    Title: Long-chain non-coding RNA Linc00888 promotes the proliferation and migration of esophageal cancer cells by downregulating miR-34a expression.
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

General gene information

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Markers

Other Names

  • long intergenic non-protein coding RNA 888
  • prostate cancer associated intergenic noncoding transcript

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_038301.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC092960, AK057000, BU681610
    Related
    ENST00000686765.1

  2. NR_038302.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' region resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC092960, BU681610, BX421767
    Related
    ENST00000471496.7

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    183447608..183456013
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    186255025..186263433
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases