Gene Page: SLC18A2
Summary ?
| GeneID | 6571 |
| Symbol | SLC18A2 |
| Synonyms | SVAT|SVMT|VAT2|VMAT2 |
| Description | solute carrier family 18 member A2 |
| Reference | MIM:193001|HGNC:HGNC:10935|Ensembl:ENSG00000165646|HPRD:01896|Vega:OTTHUMG00000019121 |
| Gene type | protein-coding |
| Map location | 10q25 |
| Pascal p-value | 0.667 |
| Fetal beta | 0.357 |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cerebellar Hemisphere Cerebellum Cortex Frontal Cortex BA9 |
| Support | NEUROTRANSMITTER METABOLISM |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| ADT:Sun_2012 | Systematic Investigation of Antipsychotic Drugs and Their Targets | A total of 382 drug-target associations involving 43 antipsychotic drugs and 49 target genes. | |
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DNM:Gulsuner_2013 | Whole Exome Sequencing analysis | 155 DNMs identified by exome sequencing of quads or trios of schizophrenia individuals and their parents. | |
| PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
| Association | A combined odds ratio method (Sun et al. 2008), association studies | 1 | Link to SZGene |
| Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizophrenias,schizotypal | Click to show details |
Section I. Genetics and epigenetics annotation
DNM table
| Gene | Chromosome | Position | Ref | Alt | Transcript | AA change | Mutation type | Sift | CG46 | Trait | Study |
|---|---|---|---|---|---|---|---|---|---|---|---|
| SLC18A2 | chr10 | 119001268 | A | C | NM_003054 | p.22I>L | missense | Schizophrenia | DNM:Gulsuner_2013 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs7095278 | 10 | 119025290 | SLC18A2 | ENSG00000165646.7 | 1.00458E-6 | 0.02 | 24686 | gtex_brain_ba24 |
| rs7099216 | 10 | 119025462 | SLC18A2 | ENSG00000165646.7 | 6.98011E-7 | 0.02 | 24858 | gtex_brain_ba24 |
Section II. Transcriptome annotation
General gene expression (GTEx)
Gene expression during devlopment (BrainCloud)
Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.
Gene expression of temporal and spatial changes (BrainSpan)
Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.
Top co-expressed genes in brain regions
| Top 10 positively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| ARMCX1 | 0.95 | 0.95 |
| CCT6A | 0.95 | 0.96 |
| KLHL7 | 0.94 | 0.95 |
| CCT2 | 0.93 | 0.96 |
| TCP1 | 0.93 | 0.95 |
| POLR2B | 0.93 | 0.94 |
| ZUFSP | 0.93 | 0.92 |
| GDI2 | 0.93 | 0.94 |
| MATR3 | 0.93 | 0.92 |
| ACTR3 | 0.93 | 0.94 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| HLA-F | -0.73 | -0.84 |
| MT-CO2 | -0.70 | -0.85 |
| AF347015.33 | -0.70 | -0.85 |
| FXYD1 | -0.70 | -0.87 |
| TSC22D4 | -0.69 | -0.82 |
| AF347015.31 | -0.69 | -0.83 |
| AF347015.27 | -0.69 | -0.83 |
| HEPN1 | -0.69 | -0.78 |
| AIFM3 | -0.69 | -0.79 |
| IFI27 | -0.69 | -0.85 |
Section III. Gene Ontology annotation
| Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
|---|---|---|---|---|
| GO:0005215 | transporter activity | IEA | - | |
| GO:0008504 | monoamine transmembrane transporter activity | TAS | 8095030 | |
| Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0015844 | monoamine transport | TAS | 8095030 | |
| Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
| GO:0005624 | membrane fraction | TAS | 8095030 | |
| GO:0016020 | membrane | IEA | - | |
| GO:0005887 | integral to plasma membrane | TAS | 8095030 | |
| GO:0031410 | cytoplasmic vesicle | IEA | - | |
| GO:0030659 | cytoplasmic vesicle membrane | IEA | - |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG PARKINSONS DISEASE | 133 | 78 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSMISSION ACROSS CHEMICAL SYNAPSES | 186 | 155 | All SZGR 2.0 genes in this pathway |
| REACTOME NEURONAL SYSTEM | 279 | 221 | All SZGR 2.0 genes in this pathway |
| REACTOME NEUROTRANSMITTER RELEASE CYCLE | 34 | 30 | All SZGR 2.0 genes in this pathway |
| REACTOME DOPAMINE NEUROTRANSMITTER RELEASE CYCLE | 11 | 11 | All SZGR 2.0 genes in this pathway |
| REACTOME NOREPINEPHRINE NEUROTRANSMITTER RELEASE CYCLE | 10 | 10 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES | 413 | 270 | All SZGR 2.0 genes in this pathway |
| REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | 241 | 157 | All SZGR 2.0 genes in this pathway |
| REACTOME TRANSPORT OF GLUCOSE AND OTHER SUGARS BILE SALTS AND ORGANIC ACIDS METAL IONS AND AMINE COMPOUNDS | 89 | 54 | All SZGR 2.0 genes in this pathway |
| REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS | 17 | 12 | All SZGR 2.0 genes in this pathway |
| REACTOME AMINE COMPOUND SLC TRANSPORTERS | 27 | 16 | All SZGR 2.0 genes in this pathway |
| LIU PROSTATE CANCER DN | 481 | 290 | All SZGR 2.0 genes in this pathway |
| CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN | 663 | 425 | All SZGR 2.0 genes in this pathway |
| DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP | 1382 | 904 | All SZGR 2.0 genes in this pathway |
| VECCHI GASTRIC CANCER EARLY DN | 367 | 220 | All SZGR 2.0 genes in this pathway |
| TAKEDA TARGETS OF NUP98 HOXA9 FUSION 16D UP | 175 | 108 | All SZGR 2.0 genes in this pathway |
| MULLIGHAN MLL SIGNATURE 1 DN | 242 | 165 | All SZGR 2.0 genes in this pathway |
| MULLIGHAN MLL SIGNATURE 2 DN | 281 | 186 | All SZGR 2.0 genes in this pathway |
| WONG ENDMETRIUM CANCER DN | 82 | 53 | All SZGR 2.0 genes in this pathway |
| WEI MYCN TARGETS WITH E BOX | 795 | 478 | All SZGR 2.0 genes in this pathway |
| RODWELL AGING KIDNEY UP | 487 | 303 | All SZGR 2.0 genes in this pathway |
| LEIN PONS MARKERS | 89 | 59 | All SZGR 2.0 genes in this pathway |
| KYNG ENVIRONMENTAL STRESS RESPONSE NOT BY 4NQO IN OLD | 13 | 10 | All SZGR 2.0 genes in this pathway |
| KYNG ENVIRONMENTAL STRESS RESPONSE NOT BY UV IN OLD | 25 | 18 | All SZGR 2.0 genes in this pathway |
| KYNG DNA DAMAGE UP | 226 | 164 | All SZGR 2.0 genes in this pathway |
| KYNG ENVIRONMENTAL STRESS RESPONSE DN | 21 | 12 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER BASAL DN | 701 | 446 | All SZGR 2.0 genes in this pathway |
| MEISSNER NPC HCP WITH H3 UNMETHYLATED | 536 | 296 | All SZGR 2.0 genes in this pathway |
| MEISSNER BRAIN HCP WITH H3K27ME3 | 269 | 159 | All SZGR 2.0 genes in this pathway |
| POOLA INVASIVE BREAST CANCER UP | 288 | 168 | All SZGR 2.0 genes in this pathway |
| YAGI AML WITH T 8 21 TRANSLOCATION | 368 | 247 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN MCV6 HCP WITH H3K27ME3 | 435 | 318 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN MEF HCP WITH H3K27ME3 | 590 | 403 | All SZGR 2.0 genes in this pathway |
| FEVR CTNNB1 TARGETS DN | 553 | 343 | All SZGR 2.0 genes in this pathway |
Section VI. microRNA annotation
| miRNA family | Target position | miRNA ID | miRNA seq | ||
|---|---|---|---|---|---|
| UTR start | UTR end | Match method | |||
| miR-142-5p | 214 | 220 | m8 | hsa-miR-142-5p | CAUAAAGUAGAAAGCACUAC |
| miR-381 | 195 | 201 | 1A | hsa-miR-381 | UAUACAAGGGCAAGCUCUCUGU |
| miR-505 | 206 | 213 | 1A,m8 | hsa-miR-505 | GUCAACACUUGCUGGUUUCCUC |
- SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
- Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.