NM_000268.4(NF2):c.337A>C (p.Ile113Leu) AND Neurofibromatosis, type 2

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Aug 26, 2020
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:: RCV001351794.7

Allele description [Variation Report for NM_000268.4(NF2):c.337A>C (p.Ile113Leu)]

NM_000268.4(NF2):c.337A>C (p.Ile113Leu)

Gene:

NF2:NF2, moesin-ezrin-radixin like (MERLIN) tumor suppressor [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

22q12.2

Genomic location:

Preferred name:

NM_000268.4(NF2):c.337A>C (p.Ile113Leu)

HGVS:

NC_000022.11:g.29639186A>C
NG_009057.1:g.40631A>C
NM_000268.4:c.337A>CMANE SELECT
NM_016418.5:c.337A>C
NM_181825.3:c.337A>C
NM_181828.3:c.211A>C
NM_181829.3:c.240+2310A>C
NM_181830.3:c.115-3016A>C
NM_181831.3:c.115-3016A>C
NM_181832.3:c.337A>C
NM_181833.3:c.337A>C
NP_000259.1:p.Ile113Leu
NP_057502.2:p.Ile113Leu
NP_861546.1:p.Ile113Leu
NP_861966.1:p.Ile71Leu
NP_861970.1:p.Ile113Leu
NP_861971.1:p.Ile113Leu
LRG_511t2:c.337A>C
LRG_511:g.40631A>C
LRG_511p2:p.Ile113Leu
NC_000022.10:g.30035175A>C
NR_156186.2:n.819A>C

Protein change:

I113L

Links:

dbSNP: rs1328289194

NCBI 1000 Genomes Browser:

rs1328289194

Molecular consequence:

NM_181829.3:c.240+2310A>C - intron variant - [Sequence Ontology: SO:0001627]
NM_181830.3:c.115-3016A>C - intron variant - [Sequence Ontology: SO:0001627]
NM_181831.3:c.115-3016A>C - intron variant - [Sequence Ontology: SO:0001627]
NM_000268.4:c.337A>C - missense variant - [Sequence Ontology: SO:0001583]
NM_016418.5:c.337A>C - missense variant - [Sequence Ontology: SO:0001583]
NM_181825.3:c.337A>C - missense variant - [Sequence Ontology: SO:0001583]
NM_181828.3:c.211A>C - missense variant - [Sequence Ontology: SO:0001583]
NM_181832.3:c.337A>C - missense variant - [Sequence Ontology: SO:0001583]
NM_181833.3:c.337A>C - missense variant - [Sequence Ontology: SO:0001583]
NR_156186.2:n.819A>C - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:: Neurofibromatosis, type 2 (SWNV)
Synonyms:: NF 2; Neurofibromatosis central type; Acoustic schwannomas bilateral; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0007039; MedGen: C0027832; Orphanet: 637; OMIM: 101000

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Homo sapiens ATP-binding cassette, sub-family A (ABC1), member 2, mRNA (cDNA clo...
Homo sapiens ATP-binding cassette, sub-family A (ABC1), member 2, mRNA (cDNA clone IMAGE:5179755)
gi|20379703|gb|BC029282.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001546291	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Aug 26, 2020)	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

SCV001546291

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Aug 26, 2020)

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, SCV001546291.4

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

Description

This sequence change replaces isoleucine with leucine at codon 113 of the NF2 protein (p.Ile113Leu). The isoleucine residue is highly conserved and there is a small physicochemical difference between isoleucine and leucine. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. Algorithms developed to predict the effect of missense changes on protein structure and function (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be tolerated, but these predictions have not been confirmed by published functional studies and their clinical significance is uncertain. This variant has not been reported in the literature in individuals with NF2-related conditions. This variant is not present in population databases (ExAC no frequency).

#	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: Sep 29, 2024

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