| HGNC Family | Non-coding RNAs |
| Name | SOX2 overlapping transcript |
| Description | This gene produces alternatively spliced long non-coding RNAs. These RNAs were observed to be upregulated in tumor cells and positively correlated to expression of the SRY-box 2 gene. Overexpression of these transcripts may promote cell proliferation. [provided by RefSeq, Dec 2017] |
| Summary |
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nA substantial body of research has demonstrated that the long noncoding RNA SOX2‐OT functions as a critical oncogenic regulator in a wide spectrum of cancers. In numerous studies, SOX2‐OT is overexpressed in malignant tissues—including pancreatic, lung (both non–small cell and squamous cell carcinomas), breast (including triple‐negative subtypes), esophageal, gastric, hepatocellular, osteosarcoma, nasopharyngeal, laryngeal, cervical, and papillary thyroid cancers—and is frequently co‐expressed with its embedded gene SOX2. In these contexts, SOX2‐OT promotes tumor initiation, cell proliferation, epithelial–mesenchymal transition, metastasis, and chemoresistance. Its molecular mechanisms often involve acting as a competing endogenous RNA to sponge multiple microRNAs (for example, members of the miR‐200 family, miR‐194‐5p, miR‐942‐5p, miR‐146b‐5p, miR‐627‐3p, miR‐192‐5p, among others), recruiting chromatin modifiers such as EZH2, and interacting with regulatory proteins including FUS and ALKBH5 to stabilize transcripts. In addition, diverse splice variants of SOX2‐OT have been identified, emphasizing its role in maintaining cancer stem cell properties while participating in exosome‐mediated intercellular signaling that modulates the tumor microenvironment and drug responses via pathways such as Wnt/β‐catenin, PI3K/AKT, and ERK."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "30"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nBeyond its central role in cancer biology, SOX2‐OT is increasingly recognized as a multifaceted regulator in non‐tumor pathologies. Altered expression of SOX2‐OT has been linked to neurodegenerative disorders such as Parkinson’s disease, while in diabetic nephropathy, its dysregulation is associated with enhanced oxidative stress and apoptosis in renal cells. In cardiovascular contexts, aberrant SOX2‐OT expression contributes to myocardial injury—such as that induced by lipopolysaccharide exposure—and has been implicated in the pathogenesis of myocardial infarction. Furthermore, by modulating Schwann cell proliferation and migration, SOX2‐OT facilitates peripheral nerve regeneration, and its upregulation correlates with fibrotic processes observed in idiopathic pulmonary fibrosis. Collectively, these studies suggest that SOX2‐OT not only drives malignant transformation and tumor progression but also orchestrates diverse cellular responses during tissue injury and repair, underscoring its potential as a biomarker and therapeutic target across a broad range of diseases."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "31", "end_ref": "39"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Zhonghu Li, Peng Jiang, Jie Li, et al. 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| Synonyms | NCRNA00043, SOX2OT |
| NCBI Gene ID | 347689 |
| 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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SOX2-OT has 1,218 functional associations with biological entities spanning 7 categories (molecular profile, organism, disease, phenotype or trait, functional term, phrase or reference, chemical, cell line, cell type or tissue, gene, protein or microRNA) extracted from 36 datasets.
Click the + buttons to view associations for SOX2-OT from the datasets below.
If available, associations are ranked by standardized value
| Dataset | Summary | |
|---|---|---|
| Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles | tissues with high or low expression of SOX2-OT gene relative to other tissues from the Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles dataset. | |
| Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray | tissue samples with high or low expression of SOX2-OT gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray dataset. | |
| Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles | tissues with high or low expression of SOX2-OT gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset. | |
| CCLE Cell Line Gene CNV Profiles | cell lines with high or low copy number of SOX2-OT gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset. | |
| CellMarker Gene-Cell Type Associations | cell types associated with SOX2-OT 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 SOX2-OT gene from the CHEA Transcription Factor Binding Site Profiles dataset. | |
| ChEA Transcription Factor Targets | transcription factors binding the promoter of SOX2-OT 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 SOX2-OT gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset. | |
| dbGAP Gene-Trait Associations | traits associated with SOX2-OT gene in GWAS and other genetic association datasets from the dbGAP Gene-Trait Associations dataset. | |
| ENCODE Histone Modification Site Profiles | histone modification site profiles with high histone modification abundance at SOX2-OT 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 SOX2-OT gene from the ENCODE Transcription Factor Binding Site Profiles dataset. | |
| ENCODE Transcription Factor Targets | transcription factors binding the promoter of SOX2-OT 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 SOX2-OT from the ESCAPE Omics Signatures of Genes and Proteins for Stem Cells dataset. | |
| GAD High Level Gene-Disease Associations | diseases associated with SOX2-OT gene in GWAS and other genetic association datasets from the GAD High Level Gene-Disease Associations dataset. | |
| GeneRIF Biological Term Annotations | biological terms co-occuring with SOX2-OT 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 SOX2-OT from the GeneSigDB Published Gene Signatures dataset. | |
| GEO Signatures of Differentially Expressed Genes for Diseases | disease perturbations changing expression of SOX2-OT gene from the GEO Signatures of Differentially Expressed Genes for Diseases dataset. | |
| GEO Signatures of Differentially Expressed Genes for Gene Perturbations | gene perturbations changing expression of SOX2-OT gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset. | |
| GEO Signatures of Differentially Expressed Genes for Kinase Perturbations | kinase perturbations changing expression of SOX2-OT gene from the GEO Signatures of Differentially Expressed Genes for Kinase Perturbations dataset. | |
| GEO Signatures of Differentially Expressed Genes for Small Molecules | small molecule perturbations changing expression of SOX2-OT gene from the GEO Signatures of Differentially Expressed Genes for Small Molecules dataset. | |
| GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations | transcription factor perturbations changing expression of SOX2-OT gene from the GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations dataset. | |
| GEO Signatures of Differentially Expressed Genes for Viral Infections | virus perturbations changing expression of SOX2-OT 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 SOX2-OT 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 SOX2-OT gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset. | |
| GTEx Tissue-Specific Aging Signatures | tissue samples with high or low expression of SOX2-OT gene relative to other tissue samples from the GTEx Tissue-Specific Aging Signatures dataset. | |
| GWAS Catalog SNP-Phenotype Associations | phenotypes associated with SOX2-OT gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations dataset. | |
| GWASdb SNP-Disease Associations | diseases associated with SOX2-OT gene in GWAS and other genetic association datasets from the GWASdb SNP-Disease Associations dataset. | |
| GWASdb SNP-Phenotype Associations | phenotypes associated with SOX2-OT gene in GWAS datasets from the GWASdb SNP-Phenotype Associations dataset. | |
| HuBMAP Azimuth Cell Type Annotations | cell types associated with SOX2-OT gene from the HuBMAP Azimuth Cell Type Annotations dataset. | |
| HuGE Navigator Gene-Phenotype Associations | phenotypes associated with SOX2-OT gene by text-mining GWAS publications from the HuGE Navigator Gene-Phenotype Associations dataset. | |
| JASPAR Predicted Transcription Factor Targets | transcription factors regulating expression of SOX2-OT 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 SOX2-OT gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset. | |
| MotifMap Predicted Transcription Factor Targets | transcription factors regulating expression of SOX2-OT gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset. | |
| Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles | cell types and tissues with high or low DNA methylation of SOX2-OT gene relative to other cell types and tissues from the Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles dataset. | |
| Roadmap Epigenomics Histone Modification Site Profiles | histone modification site profiles with high histone modification abundance at SOX2-OT 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 SOX2-OT gene relative to other tissue samples from the TCGA Signatures of Differentially Expressed Genes for Tumors dataset. | |