SCARNA9 Gene

HGNC Family Non-coding RNAs
Name small Cajal body-specific RNA 9
Description Predicted to be involved in RNA processing. Predicted to be located in nucleolus. [provided by Alliance of Genome Resources, Mar 2025]
Summary
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These works characterize LPL’s conversion from active dimers to inactive monomers, tissue‐specific redistribution, and the impact of its regulators on lipid flux, fueling advances in our understanding of triglyceride metabolism."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "7"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nAdditional investigations have refined these mechanisms by elucidating aspects such as posttranslational modifications, proteolytic processing, and intracellular chaperoning events that further regulate LPL activity and tissue lipid accumulation. Detailed biochemical studies have explored how LPL–protein interactions govern lipid clearance and regulate metabolic flux, whether in response to hormonal stimuli or nutritional transitions. Yet, amid the depth of experimental focus on these lipid‐regulatory networks"}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "8", "end_ref": "15"}]}, {"type": "t", "text": ", none of these abstracts mention or provide experimental insights regarding the function of SCARNA9.\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nSubsequent reports have further expanded the landscape of lipid regulatory pathways by examining tissue‐specific effects, alterations in lipoprotein production, and the consequences for metabolic health under conditions such as obesity, diabetes, or cardiac stress."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "16", "end_ref": "30"}]}, {"type": "t", "text": " Notably, while these studies bring clarity to multiple aspects of lipid handling and enzyme regulation, they do not address any potential role for SCARNA9—a small Cajal body-specific RNA known in other contexts to participate in the modification of spliceosomal RNAs.\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nIn summary, the body of work represented by these abstracts significantly advances our understanding of the molecular controls governing lipid metabolism, particularly through intricate regulation of LPL and its interacting partners. However, there is no evidence in the provided literature linking or detailing a function for SCARNA9 in these processes. The role of SCARNA9 remains uncharacterized in the context of lipid metabolism and related cardiovascular or metabolic disorders, highlighting an open area for future research.\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Valentina Sukonina, Aivar Lookene, Thomas Olivecrona, et al. 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Synonyms MGU2-19/30, Z32
NCBI Gene ID 619383
API
Download Associations
Predicted Functions View SCARNA9's ARCHS4 Predicted Functions.
Co-expressed Genes View SCARNA9's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View SCARNA9's ARCHS4 Predicted Functions.

Functional Associations

SCARNA9 has 1,074 functional associations with biological entities spanning 4 categories (molecular profile, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 19 datasets.

Click the + buttons to view associations for SCARNA9 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 SCARNA9 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
CellMarker Gene-Cell Type Associations cell types associated with SCARNA9 gene from the CellMarker Gene-Cell Type Associations dataset.
ChEA Transcription Factor Binding Site Profiles transcription factor binding site profiles with transcription factor binding evidence at the promoter of SCARNA9 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
ChEA Transcription Factor Targets transcription factors binding the promoter of SCARNA9 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 SCARNA9 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 SCARNA9 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 SCARNA9 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
ENCODE Transcription Factor Targets transcription factors binding the promoter of SCARNA9 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
GEO Signatures of Differentially Expressed Genes for Gene Perturbations gene perturbations changing expression of SCARNA9 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Small Molecules small molecule perturbations changing expression of SCARNA9 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 SCARNA9 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 SCARNA9 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 SCARNA9 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 SCARNA9 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles cell lines with high or low expression of SCARNA9 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles dataset.
KnockTF Gene Expression Profiles with Transcription Factor Perturbations transcription factor perturbations changing expression of SCARNA9 gene from the KnockTF Gene Expression Profiles with Transcription Factor Perturbations dataset.
MotifMap Predicted Transcription Factor Targets transcription factors regulating expression of SCARNA9 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 SCARNA9 gene from the Roadmap Epigenomics Histone Modification Site Profiles dataset.
TCGA Signatures of Differentially Expressed Genes for Tumors tissue samples with high or low expression of SCARNA9 gene relative to other tissue samples from the TCGA Signatures of Differentially Expressed Genes for Tumors dataset.