VCV002505562.1 - ClinVar

NM_003719.5(PDE8B):c.1276C>T (p.Arg426Ter)

Germline

Classification

The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.

(1)

Stars represent the aggregate review status, or the level of review supporting the aggregate germline classification for this VCV record. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. The number of submissions which contribute to this review status is shown in parentheses.

Likely pathogenic

criteria provided, single submitter

Somatic

No data submitted for somatic clinical impact

Somatic

No data submitted for oncogenicity

Variant Details

Identifiers

NM_003719.5(PDE8B):c.1276C>T (p.Arg426Ter)

Variation ID: 2505562 Accession: VCV002505562.1

Type and length

single nucleotide variant, 1 bp

Location

Cytogenetic: 5q13.3 5: 77404785 (GRCh38) [ NCBI UCSC ] 5: 76700610 (GRCh37) [ NCBI UCSC ]

Timeline in ClinVar

	First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.	Last submission Help The date of the most recent submission for each type of classification for this variant.	Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline	Jun 24, 2023	Jun 24, 2023

HGVS

Nucleotide	Protein	Molecular consequence
NM_003719.5:c.1276C>T MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.	NP_003710.1:p.Arg426Ter	nonsense
NM_001029851.4:c.985C>T	NP_001025022.1:p.Arg329Ter	nonsense
NM_001029852.4:c.1276C>T	NP_001025023.1:p.Arg426Ter	nonsense
NM_001029853.4:c.1216C>T	NP_001025024.1:p.Arg406Ter	nonsense
NM_001029854.4:c.1135C>T	NP_001025025.1:p.Arg379Ter	nonsense
NM_001349748.3:c.1273C>T	NP_001336677.1:p.Arg425Ter	nonsense
NM_001349749.3:c.1339C>T	NP_001336678.1:p.Arg447Ter	nonsense
NM_001349750.3:c.1036C>T	NP_001336679.1:p.Arg346Ter	nonsense
NM_001349751.3:c.1273C>T	NP_001336680.1:p.Arg425Ter	nonsense
NM_001349752.3:c.970C>T	NP_001336681.1:p.Arg324Ter	nonsense
NM_001349753.2:c.904C>T	NP_001336682.1:p.Arg302Ter	nonsense
NM_001376062.1:c.973C>T	NP_001362991.1:p.Arg325Ter	nonsense
NM_001376063.1:c.1267C>T	NP_001362992.1:p.Arg423Ter	nonsense
NM_001376064.1:c.1126C>T	NP_001362993.1:p.Arg376Ter	nonsense
NM_001376065.1:c.982C>T	NP_001362994.1:p.Arg328Ter	nonsense
NM_001376066.1:c.913C>T	NP_001362995.1:p.Arg305Ter	nonsense
NM_001376067.1:c.904C>T	NP_001362996.1:p.Arg302Ter	nonsense
NM_001376068.1:c.904C>T	NP_001362997.1:p.Arg302Ter	nonsense
NM_001376069.1:c.892C>T	NP_001362998.1:p.Arg298Ter	nonsense
NM_001376070.1:c.832C>T	NP_001362999.1:p.Arg278Ter	nonsense
NM_001376071.1:c.829C>T	NP_001363000.1:p.Arg277Ter	nonsense
NM_001376072.1:c.973C>T	NP_001363001.1:p.Arg325Ter	nonsense
NM_001376073.1:c.682C>T	NP_001363002.1:p.Arg228Ter	nonsense
NM_001376074.1:c.622C>T	NP_001363003.1:p.Arg208Ter	nonsense
NM_001376075.1:c.613C>T	NP_001363004.1:p.Arg205Ter	nonsense
NM_001414622.1:c.904C>T	NP_001401551.1:p.Arg302Ter	nonsense
NM_001414623.1:c.904C>T	NP_001401552.1:p.Arg302Ter	nonsense
NC_000005.10:g.77404785C>T
NC_000005.9:g.76700610C>T
NG_023364.2:g.229534C>T

... more HGVS ... less HGVS

Protein change

R205*, R208*, R228*, R277*, R278*, R298*, R302*, R305*, R324*, R325*, R328*, R329*, R346*, R376*, R379*, R406*, R423*, R425*, R426*, R447*

Other names

Canonical SPDI

NC_000005.10:77404784:C:T

Functional consequence Help The effect of the variant on RNA or protein function, based on experimental evidence from submitters.

Global minor allele frequency (GMAF) Help The global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.

Allele frequency Help The frequency of the allele represented by this VCV record.

Links

VarSome

Genes

Gene	OMIM	ClinGen Gene Dosage Sensitivity Curation		Variation Viewer Help Links to Variation Viewer, a genome browser to view variation data from NCBI databases.	Related variants
Gene	OMIM	HI score Help The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.	TS score Help The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.		Within gene Help The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants.	All Help The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene.
PDE8B		-	-	GRCh38 GRCh37	280	292

Conditions - Germline

Condition Help The condition for this variant-condition (RCV) record in ClinVar.	Classification Help The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions)	Review status Help The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status.	Last evaluated Help The most recent date that a submitter evaluated this variant for the condition.	Variation/condition record Help The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page.
Autosomal dominant striatal neurodegeneration type 1	Likely pathogenic (1)	criteria provided, single submitter	-	RCV003234861.2

Submissions - Germline

Classification Help The submitted germline classification for each SCV record. (Last evaluated)	Review status Help Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria)	Condition Help The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant.	Submitter Help The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar.	More information Help This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter.
Likely pathogenic (-)	criteria provided, single submitter (ACMG Guidelines, 2015) Method: clinical testing	Autosomal dominant striatal neurodegeneration type 1 Affected status: unknown Allele origin: unknown	Dr. med. U. Finckh, Human Genetics, Eurofins MVZ Accession: SCV003932831.1 First in ClinVar: Jun 24, 2023 Last updated: Jun 24, 2023 Comment: Heterozygous in a proband initially being tested for hereditary epilepsy and muscular dystonia. However, she also reported slurred speech since young age. No further information … (more) Heterozygous in a proband initially being tested for hereditary epilepsy and muscular dystonia. However, she also reported slurred speech since young age. No further information about the possible progression. The proband also carries the MADD risk factor NM_000036.3(AMPD1):c.34C>T (p.Gln12Ter) in homozygous state and a rare missense variant in the epilepsy-associated gene KCNQ2 (NM_172107.4(KCNQ2):c.91G>T). (less)

Germline Functional Evidence

There is no functional evidence in ClinVar for this variation. If you have generated functional data for this variation, please consider submitting that data to ClinVar.

Citations for germline classification of this variant

There are no citations for germline classification of this variant in ClinVar. If you know of citations for this variation, please consider submitting that information to ClinVar.

Text-mined citations for this variant ...

Record last updated May 08, 2024

ClinVar Genomic variation as it relates to human health

NM_003719.5(PDE8B):c.1276C>T (p.Arg426Ter)

Variant Details

Genes

Conditions - Germline

Submissions - Germline

Germline Functional Evidence

Citations for germline classification of this variant

Text-mined citations for this variant ...