HCSGD entry for RBM39
1. General information
| Official gene symbol | RBM39 |
|---|---|
| Entrez ID | 9584 |
| Gene full name | RNA binding motif protein 39 |
| Other gene symbols | CAPER CAPERalpha FSAP59 HCC1 RNPC2 |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
This gene isn't in PPI subnetwork.
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0000166 | Nucleotide binding | IEA | molecular_function |
| GO:0003676 | Nucleic acid binding | IEA | molecular_function |
| GO:0003723 | RNA binding | IEA | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | IDA IEA | cellular_component |
| GO:0005654 | Nucleoplasm | TAS | cellular_component |
| GO:0005730 | Nucleolus | IDA | cellular_component |
| GO:0005813 | Centrosome | IDA | cellular_component |
| GO:0006351 | Transcription, DNA-templated | IEA | biological_process |
| GO:0006355 | Regulation of transcription, DNA-templated | IEA | biological_process |
| GO:0006396 | RNA processing | TAS | biological_process |
| GO:0006397 | MRNA processing | IEA | biological_process |
| GO:0008380 | RNA splicing | IEA | biological_process |
| GO:0015630 | Microtubule cytoskeleton | IDA | cellular_component |
| GO:0016607 | Nuclear speck | IEA | cellular_component |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.9642079822 | 0.0588577638 | 0.9999902473 | 0.4568681108 |
- Individual experiment result
( "-" represent NA in the specific microarray platform )
( "-" represent NA in the specific microarray platform )
| Data source | Up or down | Log fold change |
|---|---|---|
| GSE11954 | Down | -0.1708032002 |
| GSE13712_SHEAR | Up | 0.0434807263 |
| GSE13712_STATIC | Down | -0.2137847516 |
| GSE19018 | Down | -0.0326327907 |
| GSE19899_A1 | Down | -0.2033236918 |
| GSE19899_A2 | Down | -0.8129282915 |
| PubMed_21979375_A1 | Down | -0.7937355823 |
| PubMed_21979375_A2 | Down | -0.3088410388 |
| GSE35957 | Down | -0.4886609056 |
| GSE36640 | Up | 0.0336851320 |
| GSE54402 | Down | -0.3862606136 |
| GSE9593 | Down | -0.4475385972 |
| GSE43922 | Down | -0.0740121532 |
| GSE24585 | Up | 0.1615718207 |
| GSE37065 | Up | 0.0508947242 |
| GSE28863_A1 | Up | 0.1656853415 |
| GSE28863_A2 | Down | -0.1090332945 |
| GSE28863_A3 | Down | -0.2636762330 |
| GSE28863_A4 | Up | 0.1306389284 |
| GSE48662 | Up | 0.2303322151 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
Not regulated by compounds
- Drugs
Not regulated by drugs
- MicroRNAs
- mirTarBase
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-1 | MIMAT0000416 | MIRT023844 | Proteomics | Functional MTI (Weak) | 18668040 |
| hsa-miR-484 | MIMAT0002174 | MIRT041834 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-221-3p | MIMAT0000278 | MIRT046886 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-26a-5p | MIMAT0000082 | MIRT050133 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-22-3p | MIMAT0000077 | MIRT050471 | CLASH | Functional MTI (Weak) | 23622248 |
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- mirRecord
No target information from mirRecord
- mirRecord
6. Text-mining results about the gene
Gene occurances in abstracts of cellular senescence-associated articles: 1 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 24876127 | We discovered a CAPERalpha/TBX3 repressor complex required to prevent senescence in primary cells and mouse embryos |
| 24876127 | Critical, previously unknown roles for CAPERalpha in controlling cell proliferation are manifest in an obligatory interaction with TBX3 to regulate chromatin structure and repress transcription of CDKN2A-p16INK and the RB pathway |
| 24876127 | The IncRNA UCA1 is a direct target of CAPERalpha/TBX3 repression whose overexpression is sufficient to induce senescence |
| 24876127 | Thus CAPERalpha/TBX3 and UCA1 constitute a coordinated, reinforcing mechanism to regulate both CDKN2A-p16INK transcription and mRNA stability |
| 24876127 | Dissociation of the CAPERalpha/TBX3 co-repressor during oncogenic stress activates UCA1, revealing a novel mechanism for oncogene-induced senescence |
| 24876127 | Our elucidation of CAPERalpha and UCA1 functions in vivo provides new insights into senescence induction, and the oncogenic and developmental properties of TBX3 |
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