PDE8B
protein-codingphosphodiesterase 8B, the group of PAS domain containing|Phosphodiesterases
Gene summary
The protein encoded by this gene is a cyclic nucleotide phosphodiesterase (PDE) that catalyzes the hydrolysis of the second messenger cAMP. The encoded protein, which does not hydrolyze cGMP, is resistant to several PDE inhibitors. Defects in this gene are a cause of autosomal dominant striatal degeneration (ADSD). Several transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jul 2010]
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~217.8 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: Unknown
Disease ID:MONDO:0005090
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AD
Disease ID:MONDO:0012205
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AD
Disease ID:MONDO:0012205
Submitter: Ambry Genetics
Inheritance Pattern: AD
Disease ID:MONDO:0013616
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AD
Disease ID:MONDO:0012205
Submitter: PanelApp Australia
Inheritance Pattern: AD
Disease ID:MONDO:0000211
Submitter: Orphanet
Inheritance Pattern: AD
Disease ID:MONDO:0013616
Submitter: Genomics England PanelApp
Clinical Genomic Database (CGD)
Manifestation: Endocrine; Neurologic
Intervention: Endocrine
Rationale: Treatment of adrenal disease (eg, potentially including surgical intervention) may be beneficial
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to PDE8B variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_003719.5. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 6 | 79 | 6 | 91 | ||
| missense | 2 | 140 | 11 | 3 | 156 | |
| nonsense | 1 | 2 | 3 | |||
| start loss | 0 | |||||
| frameshift | 5 | 1 | 3 | 9 | ||
| splice donor/acceptor (+/-2bp) | 2 | 2 | ||||
| Total | 8 | 3 | 151 | 90 | 9 | 261 |
Highest pathogenic variant AF is 0.0000027774074
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_003710.1 | 22 | MANE Select | |
| Ensembl | ENSP00000264917.6 | 22 | MANE Select | |
| RefSeq | NP_001025022.1 | 19 | Standard | |
| RefSeq | NP_001025023.1 | 21 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Cortisol synthesis and secretion - Homo sapiens (human)
- Cushing,s syndrome - Homo sapiens (human)
- Purine metabolism - Homo sapiens (human)
- Morphine addiction - Homo sapiens (human)
- G Protein Signaling Pathways
Biological Process
- cAMP catabolic process
- signal transduction
- G protein-coupled receptor signaling pathway
Molecular Function
- 3',5'-cyclic-nucleotide phosphodiesterase activity
- 3',5'-cyclic-AMP phosphodiesterase activity
- metal ion binding
Cellular Component
- cellular_component
- cytosol
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000264917
- Coding exons
- 22
- Length
- 219359
- Individuals with no LoFs
- 125734
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 14
- Defined
- 125748
- p
- 0.0000557
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 3.00 | 305 | 492 | 0.620 | 0.0000289 | 5870 |
| Missense (PolyPhen) | 96 | 226.81 | 0.42326 | 2732 | ||
| Synonymous | -0.690 | 203 | 191 | 1.06 | 0.0000126 | 1657 |
| Loss of Function | 5.31 | 5 | 42.2 | 0.118 | 0.00000197 | 523 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.000062 | 0.000062 | rare |
| Latino/Admixed American | 0.000087 | 0.000087 | rare |
| Ashkenazi Jewish | 0 | 0.0 | absent |
| East Asian | 0.000054 | 0.000054 | rare |
| Finnish | 0.000046 | 0.000046 | rare |
| European (Non-Finnish) | 0.000053 | 0.000053 | rare |
| South Asian | 0.000065 | 0.000065 | rare |
| Other | 0 | 0.0 | absent |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Hydrolyzes the second messenger cAMP, which is a key regulator of many important physiological processes. May be involved in specific signaling in the thyroid gland.;
- Disease
- DISEASE: Striatal degeneration, autosomal dominant 1 (ADSD1) [MIM:609161]: A movement disorder affecting the striatal part of the basal ganglia and characterized by bradykinesia, dysarthria and muscle rigidity. These symptoms resemble idiopathic Parkinson disease, but tremor is not present. {ECO:0000269|PubMed:20085714}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Primary pigmented nodular adrenocortical disease 3 (PPNAD3) [MIM:614190]: A rare bilateral adrenal defect causing ACTH-independent Cushing syndrome. Macroscopic appearance of the adrenals is characteristic with small pigmented micronodules observed in the cortex. Adrenal glands show overall normal size and weight, and multiple small yellow-to-dark brown nodules surrounded by a cortex with a uniform appearance. Microscopically, there are moderate diffuse cortical hyperplasia with mostly nonpigmented nodules, multiple capsular deficits and massive circumscribed and infiltrating extra-adrenal cortical excrescences with micronodules. Clinical manifestations of Cushing syndrome include facial and truncal obesity, abdominal striae, muscular weakness, osteoporosis, arterial hypertension, diabetes. {ECO:0000269|PubMed:18431404}. Note=The disease is caused by mutations affecting the gene represented in this entry.;
Intolerance Scores
- LoFtool
- 0.237
- RVIS EVS
- -0.69
- RVIS percentile EVS
- 15.2
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.752
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |