SNORD115-1 Gene

HGNC Family Non-coding RNAs
Name small nucleolar RNA, C/D box 115-1
Description This gene encodes a small nucleolar RNA (snoRNA) that is found clustered with dozens of other similar snoRNAs on chromosome 15. These genes are found mostly within introns of the IC-SNURF-SNRPN transcript, which is paternally imprinted and from the Prader-Willi/Angelman syndrome (PWS) region. This gene has been designated as copy 1 of the cluster and may be involved in the regulation of RNA editing and/or alternative splicing of the serotonin receptor 2C (HTR2C) transcript. This gene is not thought to play a major role in PWS. [provided by RefSeq, Jul 2008]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nSNORD115-1 (commonly referred to as HBII-52) is a brain‐specific C/D box small nucleolar RNA encoded within the imprinted 15q11–q13 region. It has been shown to regulate the alternative splicing of the serotonin 2C receptor mRNA by directly binding to a silencing element located in exon Vb, thereby influencing the balance of receptor isoforms. This regulatory interaction suggests that SNORD115-1 contributes to the fine control of receptor activity in the central nervous system, with potential implications for neurogenetic conditions such as Prader–Willi syndrome, where its expression is absent."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nIn addition, although SNORD115-1 is one of several paternally expressed snoRNAs in this region, studies in affected families have indicated that the complete loss of SNORD115-1 does not necessarily result in an overt clinical phenotype. This finding underscores the possibility that while SNORD115-1 modulates pre-mRNA processing events, it may not be solely responsible for the overall pathogenesis of Prader–Willi syndrome."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nMoreover, comparative and evolutionary analyses have revealed significant sequence similarities between SNORD115-1 and other snoRNAs such as SNORD119. These similarities, particularly within the antisense and stem-forming domains, suggest that SNORD115-1 and SNORD119 might have evolved from a common ancestral snoRNA gene, highlighting a potential shared mechanism in their RNA-guided regulatory roles."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Shivendra Kishore, Stefan Stamm "}, {"type": "b", "children": [{"type": "t", "text": "The snoRNA HBII-52 regulates alternative splicing of the serotonin receptor 2C."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Science (2006)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1126/science.1118265"}], "href": "https://doi.org/10.1126/science.1118265"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "16357227"}], "href": "https://pubmed.ncbi.nlm.nih.gov/16357227"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "J Cavaillé, K Buiting, M Kiefmann, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Identification of brain-specific and imprinted small nucleolar RNA genes exhibiting an unusual genomic organization."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Proc Natl Acad Sci U S A (2000)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1073/pnas.250426397"}], "href": "https://doi.org/10.1073/pnas.250426397"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "11106375"}], "href": "https://pubmed.ncbi.nlm.nih.gov/11106375"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Maren Runte, Raymonda Varon, Denise Horn, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Exclusion of the C/D box snoRNA gene cluster HBII-52 from a major role in Prader-Willi syndrome."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Hum Genet (2005)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00439-004-1219-2"}], "href": "https://doi.org/10.1007/s00439-004-1219-2"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "15565282"}], "href": "https://pubmed.ncbi.nlm.nih.gov/15565282"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Satu Nahkuri, Ryan J Taft, Darren J Korbie, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Molecular evolution of the HBII-52 snoRNA cluster."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Mol Biol (2008)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.jmb.2008.06.057"}], "href": "https://doi.org/10.1016/j.jmb.2008.06.057"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "18616950"}], "href": "https://pubmed.ncbi.nlm.nih.gov/18616950"}]}]}]}
Synonyms RNHBII52, HBII-52-1
NCBI Gene ID 338433
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Predicted Functions View SNORD115-1's ARCHS4 Predicted Functions.
Co-expressed Genes View SNORD115-1's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View SNORD115-1's ARCHS4 Predicted Functions.

Functional Associations

SNORD115-1 has 208 functional associations with biological entities spanning 4 categories (molecular profile, functional term, phrase or reference, cell line, cell type or tissue, gene, protein or microRNA) extracted from 9 datasets.

Click the + buttons to view associations for SNORD115-1 from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
CCLE Cell Line Gene CNV Profiles cell lines with high or low copy number of SNORD115-1 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
COSMIC Cell Line Gene CNV Profiles cell lines with high or low copy number of SNORD115-1 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
ENCODE Histone Modification Site Profiles histone modification site profiles with high histone modification abundance at SNORD115-1 gene from the ENCODE Histone Modification Site Profiles dataset.
ENCODE Transcription Factor Binding Site Profiles transcription factor binding site profiles with transcription factor binding evidence at the promoter of SNORD115-1 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
ENCODE Transcription Factor Targets transcription factors binding the promoter of SNORD115-1 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
GeneRIF Biological Term Annotations biological terms co-occuring with SNORD115-1 gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset.
JASPAR Predicted Transcription Factor Targets transcription factors regulating expression of SNORD115-1 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Transcription Factor Targets dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles cell lines with high or low copy number of SNORD115-1 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
KnockTF Gene Expression Profiles with Transcription Factor Perturbations transcription factor perturbations changing expression of SNORD115-1 gene from the KnockTF Gene Expression Profiles with Transcription Factor Perturbations dataset.