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NM_001077198.3(ATG9A):c.1988C>T (p.Ala663Val) AND not specified

Germline classification:
Likely benign (1 submission)
Last evaluated:
Jan 10, 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:
RCV004253641.1

Allele description [Variation Report for NM_001077198.3(ATG9A):c.1988C>T (p.Ala663Val)]

NM_001077198.3(ATG9A):c.1988C>T (p.Ala663Val)

Gene:
ATG9A:autophagy related 9A [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2q35
Genomic location:
Preferred name:
NM_001077198.3(ATG9A):c.1988C>T (p.Ala663Val)
HGVS:
  • NC_000002.12:g.219222311G>A
  • NG_032110.1:g.1680C>T
  • NM_001077198.3:c.1988C>TMANE SELECT
  • NM_024085.5:c.1988C>T
  • NP_001070666.1:p.Ala663Val
  • NP_076990.4:p.Ala663Val
  • LRG_824:g.1680C>T
  • NC_000002.11:g.220087033G>A
  • NM_001077198.1:c.1988C>T
  • NR_104255.2:n.2112C>T
Protein change:
A663V
Molecular consequence:
  • NM_001077198.3:c.1988C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_024085.5:c.1988C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_104255.2:n.2112C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Synonyms:
AllHighlyPenetrant
Identifiers:
MedGen: CN169374

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV003876696Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Likely benign
(Jan 10, 2023) 		germlineclinical testing

Citation Link

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Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Details of each submission

From Ambry Genetics, SCV003876696.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

This alteration is classified as likely benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Oct 26, 2024