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NM_001165963.4(SCN1A):c.3481G>A (p.Ala1161Thr) AND not provided

Germline classification:
Conflicting classifications of pathogenicity (2 submissions)
Last evaluated:
Jan 28, 2019
Review status:
criteria provided, conflicting classifications
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:
RCV000724750.2

Allele description

NM_001165963.4(SCN1A):c.3481G>A (p.Ala1161Thr)

Genes:
SCN1A:sodium voltage-gated channel alpha subunit 1 [Gene - OMIM - HGNC]
LOC102724058:uncharacterized LOC102724058 [Gene]
Variant type:
single nucleotide variant
Cytogenetic location:
2q24.3
Genomic location:
Preferred name:
NM_001165963.4(SCN1A):c.3481G>A (p.Ala1161Thr)
Other names:
p.A1161T:GCA>ACA
HGVS:
  • NC_000002.12:g.166015676C>T
  • NG_011906.1:g.62964G>A
  • NM_001165963.4:c.3481G>AMANE SELECT
  • NM_001165963.4:c.3481G>A
  • NM_001165964.3:c.3397G>A
  • NM_001202435.3:c.3481G>A
  • NM_001353948.2:c.3481G>A
  • NM_001353949.2:c.3448G>A
  • NM_001353950.2:c.3448G>A
  • NM_001353951.2:c.3448G>A
  • NM_001353952.2:c.3448G>A
  • NM_001353954.2:c.3445G>A
  • NM_001353955.2:c.3445G>A
  • NM_001353957.2:c.3397G>A
  • NM_001353958.2:c.3397G>A
  • NM_001353960.2:c.3394G>A
  • NM_001353961.2:c.1039G>A
  • NM_006920.6:c.3448G>A
  • NP_001159435.1:p.Ala1161Thr
  • NP_001159436.1:p.Ala1133Thr
  • NP_001189364.1:p.Ala1161Thr
  • NP_001340877.1:p.Ala1161Thr
  • NP_001340878.1:p.Ala1150Thr
  • NP_001340879.1:p.Ala1150Thr
  • NP_001340880.1:p.Ala1150Thr
  • NP_001340881.1:p.Ala1150Thr
  • NP_001340883.1:p.Ala1149Thr
  • NP_001340884.1:p.Ala1149Thr
  • NP_001340886.1:p.Ala1133Thr
  • NP_001340887.1:p.Ala1133Thr
  • NP_001340889.1:p.Ala1132Thr
  • NP_001340890.1:p.Ala347Thr
  • NP_008851.3:p.Ala1150Thr
  • LRG_8:g.62964G>A
  • NC_000002.11:g.166872186C>T
  • NM_001165963.1:c.3481G>A
  • NR_110598.1:n.239C>T
  • NR_148667.2:n.3834G>A
Protein change:
A1132T
Links:
dbSNP: rs201079458
NCBI 1000 Genomes Browser:
rs201079458
Molecular consequence:
  • NM_001165963.4:c.3481G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001165964.3:c.3397G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001202435.3:c.3481G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353948.2:c.3481G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353949.2:c.3448G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353950.2:c.3448G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353951.2:c.3448G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353952.2:c.3448G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353954.2:c.3445G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353955.2:c.3445G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353957.2:c.3397G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353958.2:c.3397G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353960.2:c.3394G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001353961.2:c.1039G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_006920.6:c.3448G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NR_110598.1:n.239C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_148667.2:n.3834G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
Observations:
1

Condition(s)

Identifiers:
MedGen: CN517202

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV000226591EGL Genetic Diagnostics, Eurofins Clinical Diagnostics
criteria provided, single submitter

(EGL Classification Definitions 2015)		Uncertain significance
(Apr 22, 2015) 		germlineclinical testing

Citation Link,

SCV000559690Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Likely benign
(Jan 28, 2019) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknown1not providednot providednot providednot providedclinical 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 EGL Genetic Diagnostics, Eurofins Clinical Diagnostics, SCV000226591.5

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot provided1not providednot providednot provided

From Invitae, SCV000559690.4

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Nov 29, 2021