| HGNC Family | Non-coding RNAs |
| Name | RNA, U1 small nuclear 1 |
| Description | Predicted to enable pre-mRNA 5'-splice site binding activity. Predicted to be involved in mRNA 5'-splice site recognition. Predicted to be part of U1 snRNP. [provided by Alliance of Genome Resources, Mar 2025] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nCanonical RNU1-1 encodes the U1 small nuclear RNA that is essential for accurate pre‐mRNA splicing. In addition to its classical role of recognizing 5′ splice sites and initiating spliceosome assembly, U1 snRNA safeguards nascent transcripts from premature cleavage and polyadenylation—a process termed “telescripting.” Two independent studies demonstrated that even moderate decreases in U1 levels result in a downstream shift of polyadenylation sites, mRNA shortening, and altered exon choices—mechanisms that help preserve transcriptome integrity and may dynamically regulate gene expression during cellular activation and differentiation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nBeyond its protective functions, the activity of U1 snRNA may be modulated by interactions with regulatory proteins. For example, association of the U1 snRNP with splicing regulators such as the polypyrimidine tract‐binding protein (PTB) alters splice site recognition and can repress alternative exon inclusion, thereby fine‐tuning spliceosomal activity. Moreover, engineered U1 snRNA variants that re‐establish proper 5′ splice site recognition have been successfully employed to correct splicing defects in genetic disorders such as aromatic l‐amino acid decarboxylase deficiency, underscoring the therapeutic potential of manipulating U1‐mediated splicing."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nComparative analyses further reveal that while the canonical RNU1-1 transcript is efficiently incorporated into functional snRNPs, a number of U1‐like variant transcripts exhibit cell type–specific expression patterns—for instance, being upregulated in stem cells—but generally show reduced capacity for interacting with core U1 snRNP proteins. This differential assembly suggests that variant U1 snRNAs could play nuanced roles in cell fate decisions by modulating the balance between canonical splicing and alternative processing events."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Michael G Berg, Larry N Singh, Ihab Younis, et al. "}, {"type": "b", "children": [{"type": "t", "text": "U1 snRNP determines mRNA length and regulates isoform expression."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cell (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.cell.2012.05.029"}], "href": "https://doi.org/10.1016/j.cell.2012.05.029"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22770214"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22770214"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Jung-Min Oh, Chao Di, Christopher C Venters, et al. "}, {"type": "b", "children": [{"type": "t", "text": "U1 snRNP telescripting regulates a size-function-stratified human genome."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Struct Mol Biol (2017)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/nsmb.3473"}], "href": "https://doi.org/10.1038/nsmb.3473"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "28967884"}], "href": "https://pubmed.ncbi.nlm.nih.gov/28967884"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Shalini Sharma, Christophe Maris, Frédéric H-T Allain, et al. "}, {"type": "b", "children": [{"type": "t", "text": "U1 snRNA directly interacts with polypyrimidine tract-binding protein during splicing repression."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cell (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.molcel.2011.02.012"}], "href": "https://doi.org/10.1016/j.molcel.2011.02.012"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21362553"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21362553"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Ni-Chung Lee, Yu-May Lee, Pin-Wen Chen, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Mutation-adapted U1 snRNA corrects a splicing error of the dopa decarboxylase gene."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Hum Mol Genet (2016)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/hmg/ddw323"}], "href": "https://doi.org/10.1093/hmg/ddw323"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "27658936"}], "href": "https://pubmed.ncbi.nlm.nih.gov/27658936"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Pilar Vazquez-Arango, Jane Vowles, Cathy Browne, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Variant U1 snRNAs are implicated in human pluripotent stem cell maintenance and neuromuscular disease."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2016)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gkw711"}], "href": "https://doi.org/10.1093/nar/gkw711"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "27536002"}], "href": "https://pubmed.ncbi.nlm.nih.gov/27536002"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Jason Wong, Ryan Yellamaty, Christina Gallante, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Examining the capacity of human U1 snRNA variants to facilitate pre-mRNA splicing."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "RNA (2024)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1261/rna.079892.123"}], "href": "https://doi.org/10.1261/rna.079892.123"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "38164604"}], "href": "https://pubmed.ncbi.nlm.nih.gov/38164604"}]}]}]}
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| Synonyms | RNU1A1, RNU1A, RNU1G4, U1A1, HSD1, HU1-1, RNU1A3, U1 |
| NCBI Gene ID | 26871 |
| 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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RNU1-1 has 679 functional associations with biological entities spanning 5 categories (molecular profile, functional term, phrase or reference, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 9 datasets.
Click the + buttons to view associations for RNU1-1 from the datasets below.
If available, associations are ranked by standardized value
| Dataset | Summary | |
|---|---|---|
| ChEA Transcription Factor Binding Site Profiles | transcription factor binding site profiles with transcription factor binding evidence at the promoter of RNU1-1 gene from the CHEA Transcription Factor Binding Site Profiles dataset. | |
| ChEA Transcription Factor Targets | transcription factors binding the promoter of RNU1-1 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets dataset. | |
| GeneRIF Biological Term Annotations | biological terms co-occuring with RNU1-1 gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset. | |
| GeneSigDB Published Gene Signatures | PubMedIDs of publications reporting gene signatures containing RNU1-1 from the GeneSigDB Published Gene Signatures dataset. | |
| GEO Signatures of Differentially Expressed Genes for Small Molecules | small molecule perturbations changing expression of RNU1-1 gene from the GEO Signatures of Differentially Expressed Genes for Small Molecules dataset. | |
| GTEx Tissue Gene Expression Profiles | tissues with high or low expression of RNU1-1 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 RNU1-1 gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset. | |
| Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles | cell lines with high or low copy number of RNU1-1 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset. | |
| MiRTarBase microRNA Targets | microRNAs targeting RNU1-1 gene in low- or high-throughput microRNA targeting studies from the MiRTarBase microRNA Targets dataset. | |