NM_001161352.2(KCNMA1):c.885-4A>G AND Generalized epilepsy-paroxysmal dyskinesia syndrome

Germline classification:: Likely benign (1 submission)
Last evaluated:: Oct 9, 2023
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

Somatic classification of clinical impact:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Somatic classification of oncogenicity:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Record status:: current
Accession:: RCV003622232.2

Allele description [Variation Report for NM_001161352.2(KCNMA1):c.885-4A>G]

NM_001161352.2(KCNMA1):c.885-4A>G

Gene:

KCNMA1:potassium calcium-activated channel subfamily M alpha 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

10q22.3

Genomic location:

Preferred name:

NM_001161352.2(KCNMA1):c.885-4A>G

HGVS:

NC_000010.11:g.77112446T>C
NG_012270.1:g.530374A>G
NM_001014797.3:c.885-4A>G
NM_001161352.2:c.885-4A>GMANE SELECT
NM_001161353.2:c.885-4A>G
NM_001271518.2:c.723-4A>G
NM_001271519.2:c.885-4A>G
NM_001322829.2:c.885-4A>G
NM_001322830.2:c.885-4A>G
NM_001322832.2:c.885-4A>G
NM_001322835.2:c.885-4A>G
NM_001322836.2:c.885-4A>G
NM_001322837.2:c.885-4A>G
NM_001322838.2:c.345-4A>G
NM_001410940.1:c.885-4A>G
NM_002247.4:c.885-4A>G
NC_000010.10:g.78872204T>C

Molecular consequence:

NM_001014797.3:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001161352.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001161353.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001271518.2:c.723-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001271519.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322829.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322830.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322832.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322835.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322836.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322837.2:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001322838.2:c.345-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001410940.1:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_002247.4:c.885-4A>G - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Name:: Generalized epilepsy-paroxysmal dyskinesia syndrome (PNKD3)
Synonyms:: Generalized epilepsy and paroxysmal dyskinesia; Paroxysmal nonkinesigenic dyskinesia, 3, with or without generalized epilepsy
Identifiers:: MONDO: MONDO:0012276; MedGen: C5574945; Orphanet: 79137; OMIM: 609446

Recent activity

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Bacteroides stercoris ATCC 43183 Scfld_02_13, whole genome shotgun sequence
Bacteroides stercoris ATCC 43183 Scfld_02_13, whole genome shotgun sequence
gi|223955873|ref|NZ_DS499674.1||gnl NZ_ABFZ|Scfld_02_13

Nucleotide
dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform...
dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X2 [Homo sapiens]
gi|2462581111|ref|XP_054179776.1|

Protein
Hoeflea sp. EC-HK425 isolate HOE425 genome assembly, scaffold: HOE425_scaffold28...
Hoeflea sp. EC-HK425 isolate HOE425 genome assembly, scaffold: HOE425_scaffold28, whole genome shotgun sequence
gi|1761821406|emb|LR701572.1|

Nucleotide
Chain A, ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit
Chain A, ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit
gi|66360129|pdb|1SVD|A

Protein

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004547622	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Likely benign (Oct 9, 2023)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV004547622

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Likely benign
(Oct 9, 2023)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV004547622.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (1)

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Oct 13, 2024

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