NM_006772.3(SYNGAP1):c.3344T>C (p.Ile1115Thr) AND SYNGAP1-related disorder

Germline classification:: Benign (1 submission)
Last evaluated:: Jan 5, 2021
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

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:: RCV004549587.2

Allele description [Variation Report for NM_006772.3(SYNGAP1):c.3344T>C (p.Ile1115Thr)]

NM_006772.3(SYNGAP1):c.3344T>C (p.Ile1115Thr)

Genes:

SYNGAP1-AS1:SYNGAP1 antisense RNA 1 [Gene - HGNC]
SYNGAP1:synaptic Ras GTPase activating protein 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

6p21.32

Genomic location:

Preferred name:

NM_006772.3(SYNGAP1):c.3344T>C (p.Ile1115Thr)

Other names:

NM_006772.2(SYNGAP1):c.3344T>C(p.Ile1115Thr)

HGVS:

NC_000006.12:g.33443896T>C
NG_016137.2:g.28827T>C
NM_001130066.2:c.3302T>C
NM_006772.3:c.3344T>CMANE SELECT
NP_001123538.1:p.Ile1101Thr
NP_006763.2:p.Ile1115Thr
LRG_1193t1:c.3344T>C
LRG_1193:g.28827T>C
LRG_1193p1:p.Ile1115Thr
NC_000006.11:g.33411673T>C
NM_006772.2:c.3344T>C
Q96PV0:p.Ile1115Thr

Protein change:

I1101T

Links:

UniProtKB: Q96PV0#VAR_065082; dbSNP: rs191549504

NCBI 1000 Genomes Browser:

rs191549504

Molecular consequence:

NM_001130066.2:c.3302T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_006772.3:c.3344T>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: SYNGAP1-related disorder
Synonyms:: SYNGAP1-related condition
Identifiers:

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004794727	PreventionGenetics, part of Exact Sciences	no assertion criteria provided	Benign (Jan 5, 2021)	germline	clinical testing

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV004794727

PreventionGenetics, part of Exact Sciences

no assertion criteria provided

Benign
(Jan 5, 2021)

germline

clinical testing

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

Details of each submission

From PreventionGenetics, part of Exact Sciences, SCV004794727.2

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

Description

This variant is classified as benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications).

#	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: Nov 24, 2024

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