HCSGD entry for SHMT2
1. General information
| Official gene symbol | SHMT2 |
|---|---|
| Entrez ID | 6472 |
| Gene full name | serine hydroxymethyltransferase 2 (mitochondrial) |
| Other gene symbols | GLYA SHMT |
| 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:0003682 | Chromatin binding | IDA | molecular_function |
| GO:0004372 | Glycine hydroxymethyltransferase activity | IDA IEA | molecular_function |
| GO:0005739 | Mitochondrion | IDA | cellular_component |
| GO:0005743 | Mitochondrial inner membrane | IDA IEA | cellular_component |
| GO:0005758 | Mitochondrial intermembrane space | IEA | cellular_component |
| GO:0005759 | Mitochondrial matrix | IDA IEA | cellular_component |
| GO:0006544 | Glycine metabolic process | IEA | biological_process |
| GO:0006563 | L-serine metabolic process | IEA | biological_process |
| GO:0006564 | L-serine biosynthetic process | IEA | biological_process |
| GO:0006730 | One-carbon metabolic process | IDA | biological_process |
| GO:0008168 | Methyltransferase activity | IEA | molecular_function |
| GO:0008284 | Positive regulation of cell proliferation | IEA | biological_process |
| GO:0008732 | L-allo-threonine aldolase activity | IEA | molecular_function |
| GO:0015630 | Microtubule cytoskeleton | IDA | cellular_component |
| GO:0016597 | Amino acid binding | IEA | molecular_function |
| GO:0019264 | Glycine biosynthetic process from serine | IEA | biological_process |
| GO:0030170 | Pyridoxal phosphate binding | IEA | molecular_function |
| GO:0035999 | Tetrahydrofolate interconversion | IEA | biological_process |
| GO:0042645 | Mitochondrial nucleoid | IDA | cellular_component |
| GO:0042802 | Identical protein binding | IEA | molecular_function |
| GO:0051289 | Protein homotetramerization | IEA | biological_process |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.8744755025 | 0.0164590251 | 0.9999902473 | 0.2501109059 |
- 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 | -0.5419045644 |
| GSE13712_SHEAR | Up | 0.0907987865 |
| GSE13712_STATIC | Down | -0.0836798556 |
| GSE19018 | Up | 0.6266052820 |
| GSE19899_A1 | Down | -0.0646143160 |
| GSE19899_A2 | Down | -0.3116118922 |
| PubMed_21979375_A1 | Up | 0.1284021163 |
| PubMed_21979375_A2 | Down | -0.7447447301 |
| GSE35957 | Down | -0.7251731824 |
| GSE36640 | Down | -0.8250384174 |
| GSE54402 | Down | -0.1839772942 |
| GSE9593 | Down | -0.2002436996 |
| GSE43922 | Down | -0.0137222649 |
| GSE24585 | Down | -0.6208272636 |
| GSE37065 | Down | -0.4179180200 |
| GSE28863_A1 | Up | 0.2804103987 |
| GSE28863_A2 | Down | -0.5896844482 |
| GSE28863_A3 | Down | -0.1761081255 |
| GSE28863_A4 | Up | 0.0116113030 |
| GSE48662 | Up | 0.2694294961 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
Not regulated by compounds
- MicroRNAs
- mirTarBase
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-193b-3p | MIMAT0002819 | MIRT006985 | Luciferase reporter assay//Reporter assay;Proteomics | Functional MTI | 21512034 |
| hsa-miR-193b-3p | MIMAT0002819 | MIRT006985 | Microarray | Functional MTI (Weak) | 20304954 |
| hsa-miR-193b-3p | MIMAT0002819 | MIRT006985 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-124-3p | MIMAT0000422 | MIRT022849 | Proteomics;Microarray | Non-Functional MTI (Weak) | 18668037 |
| hsa-miR-940 | MIMAT0004983 | MIRT036608 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-615-3p | MIMAT0003283 | MIRT040137 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-423-3p | MIMAT0001340 | MIRT042617 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-186-5p | MIMAT0000456 | MIRT045122 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-92a-3p | MIMAT0000092 | MIRT049169 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-let-7a-5p | MIMAT0000062 | MIRT052431 | 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: This gene isn't in text-mining gene-sentence result.
