| HGNC Family | Non-coding RNAs |
| Name | RNA, U12 small nuclear |
| Description | Predicted to enable pre-mRNA branch point binding activity. Predicted to be involved in negative regulation of neuron apoptotic process. Predicted to act upstream of or within RNA splicing. Predicted to be part of U12 snRNP. Implicated in autosomal recessive spinocerebellar ataxia 33. [provided by Alliance of Genome Resources, Mar 2025] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nRNU12 encodes a small nuclear RNA that is an integral component of the minor (U12‐dependent) spliceosome—a specialized machinery responsible for the recognition and removal of U12‐type introns. Proper U12 spliceosome assembly is critical for accurate splicing, as exemplified by studies showing that disruption of its components (for example, mutations in the spliceosome factor ZRSR2) leads to selective retention of U12‐type introns and associated pathologies. This context underlines the importance of each constituent, including RNU12, in maintaining splicing fidelity."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nRecent investigations into the molecular consequences of specific RNU12 mutations have revealed that single‐nucleotide changes, such as the 84C>U variant, destabilize the U12 snRNA. This mutation precipitates accelerated decay and the accumulation of 3′-truncated decay intermediates, thereby reducing the steady-state levels of functional U12 snRNA. Such destabilization impairs the minor spliceosome’s capacity to correctly recognize and excise U12-type introns, contributing to aberrant splicing patterns observed in early-onset cerebellar ataxia."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nComplementary findings from clinical genetic studies further support the indispensable role of RNU12 in development and tissue patterning. In patients with CDAGS syndrome, biallelic rare variants affecting conserved nucleotides within the precursor U12 snRNA compromise its secondary structure and critical binding sites, leading to alternative splicing events and mis-expression of downstream genes. These alterations correlate with clinical features such as craniosynostosis, clavicular hypoplasia, anal abnormalities, and cutaneous manifestations, emphasizing that precise RNU12 function is essential for normal minor intron splicing and developmental patterning."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": ""}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Vikas Madan, Deepika Kanojia, Jia Li, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Aberrant splicing of U12-type introns is the hallmark of ZRSR2 mutant myelodysplastic syndrome."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Commun (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/ncomms7042"}], "href": "https://doi.org/10.1038/ncomms7042"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25586593"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25586593"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Antto J Norppa, Mikko J Frilander "}, {"type": "b", "children": [{"type": "t", "text": "The integrity of the U12 snRNA 3' stem-loop is necessary for its overall stability."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gkab048"}], "href": "https://doi.org/10.1093/nar/gkab048"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33577674"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33577674"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Chao Xing, Mohammed Kanchwala, Jonathan J Rios, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Biallelic variants in RNU12 cause CDAGS syndrome."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Hum Mutat (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1002/humu.24239"}], "href": "https://doi.org/10.1002/humu.24239"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "34085356"}], "href": "https://pubmed.ncbi.nlm.nih.gov/34085356"}]}]}]}
|
| Synonyms | RNU12-1, RNU12L, DJ222E13.7 |
| NCBI Gene ID | 267010 |
| API | |
| Download Associations | |
| Predicted Functions |
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| Co-expressed Genes |
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| Expression in Tissues and Cell Lines |
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RNU12 has 1,833 functional associations with biological entities spanning 5 categories (molecular profile, organism, functional term, phrase or reference, cell line, cell type or tissue, gene, protein or microRNA) extracted from 18 datasets.
Click the + buttons to view associations for RNU12 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 RNU12 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset. | |
| ChEA Transcription Factor Binding Site Profiles | transcription factor binding site profiles with transcription factor binding evidence at the promoter of RNU12 gene from the CHEA Transcription Factor Binding Site Profiles dataset. | |
| ChEA Transcription Factor Targets | transcription factors binding the promoter of RNU12 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets dataset. | |
| COSMIC Cell Line Gene CNV Profiles | cell lines with high or low copy number of RNU12 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 RNU12 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 RNU12 gene from the ENCODE Transcription Factor Binding Site Profiles dataset. | |
| ENCODE Transcription Factor Targets | transcription factors binding the promoter of RNU12 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset. | |
| ESCAPE Omics Signatures of Genes and Proteins for Stem Cells | PubMedIDs of publications reporting gene signatures containing RNU12 from the ESCAPE Omics Signatures of Genes and Proteins for Stem Cells dataset. | |
| GeneSigDB Published Gene Signatures | PubMedIDs of publications reporting gene signatures containing RNU12 from the GeneSigDB Published Gene Signatures dataset. | |
| GEO Signatures of Differentially Expressed Genes for Gene Perturbations | gene perturbations changing expression of RNU12 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset. | |
| GEO Signatures of Differentially Expressed Genes for Viral Infections | virus perturbations changing expression of RNU12 gene from the GEO Signatures of Differentially Expressed Genes for Viral Infections dataset. | |
| GTEx Tissue Gene Expression Profiles | tissues with high or low expression of RNU12 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles dataset. | |
| GTEx Tissue Sample Gene Expression Profiles | tissue samples with high or low expression of RNU12 gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset. | |
| JASPAR Predicted Transcription Factor Targets | transcription factors regulating expression of RNU12 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 RNU12 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 RNU12 gene from the KnockTF Gene Expression Profiles with Transcription Factor Perturbations dataset. | |
| MotifMap Predicted Transcription Factor Targets | transcription factors regulating expression of RNU12 gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset. | |
| Roadmap Epigenomics Histone Modification Site Profiles | histone modification site profiles with high histone modification abundance at RNU12 gene from the Roadmap Epigenomics Histone Modification Site Profiles dataset. | |