Gene Page: PDE6B
Summary ?
| GeneID | 5158 |
| Symbol | PDE6B |
| Synonyms | CSNB3|CSNBAD2|PDEB|RP40|rd1 |
| Description | phosphodiesterase 6B |
| Reference | MIM:180072|HGNC:HGNC:8786|Ensembl:ENSG00000133256|HPRD:01571|Vega:OTTHUMG00000159909 |
| Gene type | protein-coding |
| Map location | 4p16.3 |
| Pascal p-value | 0.005 |
| Sherlock p-value | 0.96 |
| eGene | Cerebellar Hemisphere Cerebellum Myers' cis & trans |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS |
Section I. Genetics and epigenetics annotation
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs7556766 | chr2 | 222648582 | PDE6B | 5158 | 0.16 | trans | ||
| rs17038365 | chr3 | 1418752 | PDE6B | 5158 | 0.01 | trans | ||
| rs5003961 | chr7 | 78072443 | PDE6B | 5158 | 0.03 | trans | ||
| rs4515471 | chr7 | 78072585 | PDE6B | 5158 | 0.03 | trans | ||
| rs10259327 | chr7 | 78074924 | PDE6B | 5158 | 0.03 | trans |
Section II. Transcriptome annotation
General gene expression (GTEx)
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 |
| RNF31 | 0.85 | 0.82 |
| DPH1 | 0.85 | 0.84 |
| WDR24 | 0.85 | 0.81 |
| ATP13A1 | 0.84 | 0.82 |
| GGA1 | 0.84 | 0.81 |
| E4F1 | 0.84 | 0.80 |
| SCAP | 0.83 | 0.79 |
| KLHL22 | 0.83 | 0.82 |
| Z92544.1 | 0.83 | 0.79 |
| WDR8 | 0.83 | 0.80 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| AF347015.21 | -0.66 | -0.74 |
| MT-CO2 | -0.65 | -0.69 |
| AF347015.31 | -0.65 | -0.68 |
| AF347015.27 | -0.63 | -0.69 |
| AF347015.8 | -0.62 | -0.68 |
| AF347015.33 | -0.62 | -0.67 |
| MT-CYB | -0.61 | -0.66 |
| AF347015.2 | -0.58 | -0.66 |
| AF347015.15 | -0.58 | -0.64 |
| C5orf53 | -0.57 | -0.58 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| KEGG PURINE METABOLISM | 159 | 96 | All SZGR 2.0 genes in this pathway |
| ST WNT CA2 CYCLIC GMP PATHWAY | 20 | 14 | All SZGR 2.0 genes in this pathway |
| PID RHODOPSIN PATHWAY | 24 | 10 | All SZGR 2.0 genes in this pathway |
| REACTOME CGMP EFFECTS | 19 | 13 | All SZGR 2.0 genes in this pathway |
| REACTOME NITRIC OXIDE STIMULATES GUANYLATE CYCLASE | 25 | 19 | All SZGR 2.0 genes in this pathway |
| REACTOME PLATELET HOMEOSTASIS | 78 | 49 | All SZGR 2.0 genes in this pathway |
| REACTOME HEMOSTASIS | 466 | 331 | All SZGR 2.0 genes in this pathway |
| DODD NASOPHARYNGEAL CARCINOMA UP | 1821 | 933 | All SZGR 2.0 genes in this pathway |
| GAUSSMANN MLL AF4 FUSION TARGETS D UP | 38 | 23 | All SZGR 2.0 genes in this pathway |
| MANTOVANI VIRAL GPCR SIGNALING UP | 86 | 54 | All SZGR 2.0 genes in this pathway |
| ASTON MAJOR DEPRESSIVE DISORDER DN | 160 | 110 | All SZGR 2.0 genes in this pathway |
| LI WILMS TUMOR VS FETAL KIDNEY 1 UP | 182 | 119 | All SZGR 2.0 genes in this pathway |
| DURCHDEWALD SKIN CARCINOGENESIS DN | 264 | 168 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K27ME3 | 42 | 27 | All SZGR 2.0 genes in this pathway |
| SENGUPTA EBNA1 ANTICORRELATED | 173 | 85 | All SZGR 2.0 genes in this pathway |