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    SNHG28 small nucleolar RNA host gene 28 [ Homo sapiens (human) ]

    Gene ID: 284677, updated on 28-Oct-2024

    Summary

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    Official Symbol
    SNHG28provided by HGNC
    Official Full Name
    small nucleolar RNA host gene 28provided by HGNC
    Primary source
    HGNC:HGNC:27647
    See related
    Ensembl:ENSG00000188004 AllianceGenome:HGNC:27647
    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
    C1orf204; VSIG8-OT1
    Summary
    Enables RNA binding activity. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in appendix (RPKM 8.6), lymph node (RPKM 7.4) and 23 other tissues See more
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    Genomic context

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    See SNHG28 in Genome Data Viewer
    Location:
    1q23.2
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (159834478..159855037, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (158971473..158992042, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (159804268..159824827, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1454 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:159751068-159751644 Neighboring gene CRISPRi-validated cis-regulatory element chr1.9322 Neighboring gene dual specificity phosphatase 23 Neighboring gene Sharpr-MPRA regulatory region 9392 Neighboring gene uncharacterized LOC105371464 Neighboring gene Fc receptor like 6 Neighboring gene SLAM family member 8 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:159815652-159816152 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:159816153-159816653 Neighboring gene small nucleolar RNA SNORD64 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1455 Neighboring gene uncharacterized LOC107985216 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:159830948-159831862 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:159831863-159832775 Neighboring gene V-set and immunoglobulin domain containing 8 Neighboring gene Sharpr-MPRA regulatory region 5062 Neighboring gene cilia and flagella associated protein 45 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:159859176-159860375 Neighboring gene uncharacterized LOC124904434 Neighboring gene microRNA 4259

    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. Oligoclonal band status in Scandinavian multiple sclerosis patients is associated with specific genetic risk alleles. Mero IL, et al. PLoS One, 2013. PMID 23472185, Free PMC Article
    2. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621
    3. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    4. 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
    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

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Oligoclonal band status in Scandinavian multiple sclerosis patients is associated with specific genetic risk alleles.
    EBI GWAS Catalog

    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

    • VSIG8 overlapping transcript 1

    Clone Names

    • FLJ20442, FLJ39187

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 

    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_147122.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL080176, AL590560, DA364631
      Related
      ENST00000676197.1

    2. NR_147123.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL080176, AL590560, DA288133

    3. NR_147124.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL080176, AL590560, BI753917
      Related
      ENST00000491974.2

    4. NR_147125.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL080176, AL537381, AL590560
      Related
      ENST00000674760.1

    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
      159834478..159855037 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      158971473..158992042 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001134233.1: Suppressed sequence

      Description
      NM_001134233.1: This RefSeq was removed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P0DPA3.1 GenPept UniProtKB/Swiss-Prot:P0DPA3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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