PDE8B

protein-coding

phosphodiesterase 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

NM_003719.5

Inheritance

AD

ClinVar variants

P:11U:151B:99

Top phenotype

Pigmented nodular adrenocortical disease, primary, 3

gnomAD constraint

pLI —, LoF o/e 0.12

Max pathogenic AF

—

Genomic locus

chr5:77,210,449-77,428,256

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~217.8 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

schizophreniaNO_KNOWN

Inheritance Pattern: Unknown

Disease ID:MONDO:0005090

Submitter: Labcorp Genetics (formerly Invitae)

autosomal dominant striatal neurodegeneration type 1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0012205

Submitter: Labcorp Genetics (formerly Invitae)

autosomal dominant striatal neurodegeneration type 1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0012205

Submitter: Ambry Genetics

pigmented nodular adrenocortical disease, primary, 3LIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0013616

Submitter: Labcorp Genetics (formerly Invitae)

autosomal dominant striatal neurodegeneration type 1STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0012205

Submitter: PanelApp Australia

striatal degeneration, autosomal dominantSUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0000211

Submitter: Orphanet

pigmented nodular adrenocortical disease, primary, 3STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0013616

Submitter: Genomics England PanelApp

Clinical Genomic Database (CGD)

Pigmented nodular adrenocortical disease, primary, 3AD

Manifestation: Endocrine; Neurologic

Intervention: Endocrine

Rationale: Treatment of adrenal disease (eg, potentially including surgical intervention) may be beneficial

Refs: 15210883; 18272904; 21115159; 20085714; 20373981Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to PDE8B variants in ClinVar

7 Conditions Cataloged
not providedTotal: 214
Inborn genetic diseasesTotal: 81
Autosomal dominant striatal neurodegeneration type 1Total: 55
not specifiedTotal: 49
PDE8B-related disorderTotal: 13
PDE8B-Related DisordersTotal: 1
Pigmented nodular adrenocortical disease, primary, 3Total: 1

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.

EffectPLPVUSLBBSum
synonymous
6
clinvar
79
clinvar
6
clinvar
91
missense
2
clinvar
140
clinvar
11
clinvar
3
clinvar
156
nonsense
1
clinvar
2
clinvar
3
start loss
0
frameshift
5
clinvar
1
clinvar
3
clinvar
9
splice donor/acceptor (+/-2bp)
2
clinvar
2
Total83151909261

Highest pathogenic variant AF is 0.0000027774074

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 44 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_003719.5RefSeqNP_003710.122MANE Select
ENST00000264917.10EnsemblENSP00000264917.622MANE Select
NM_001029851.4RefSeqNP_001025022.119Standard
NM_001029852.4RefSeqNP_001025023.121Standard

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: gnomAD

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-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense3.003054920.6200.00002895870
Missense (PolyPhen)96226.810.423262732
Synonymous-0.6902031911.060.00001261657
Loss of Function5.31542.20.1180.00000197523

Population LoF Frequency

PopulationCAFp-valueStatus
African0.0000620.000062rare
Latino/Admixed American0.0000870.000087rare
Ashkenazi Jewish00.0absent
East Asian0.0000540.000054rare
Finnish0.0000460.000046rare
European (Non-Finnish)0.0000530.000053rare
South Asian0.0000650.000065rare
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

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

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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