NM_000264.5(PTCH1):c.3448A>G (p.Arg1150Gly) AND Gorlin syndrome

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Aug 17, 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:: RCV003610921.2

Allele description [Variation Report for NM_000264.5(PTCH1):c.3448A>G (p.Arg1150Gly)]

NM_000264.5(PTCH1):c.3448A>G (p.Arg1150Gly)

Gene:

PTCH1:patched 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

9q22.32

Genomic location:

Preferred name:

NM_000264.5(PTCH1):c.3448A>G (p.Arg1150Gly)

HGVS:

NC_000009.12:g.95453479T>C
NG_007664.1:g.68487A>G
NM_000264.5:c.3448A>GMANE SELECT
NM_001083602.3:c.3250A>G
NM_001083603.3:c.3445A>G
NM_001083604.3:c.2995A>G
NM_001083605.3:c.2995A>G
NM_001083606.3:c.2995A>G
NM_001083607.3:c.2995A>G
NM_001354918.2:c.3292A>G
NP_000255.2:p.Arg1150Gly
NP_000255.2:p.Arg1150Gly
NP_001077071.1:p.Arg1084Gly
NP_001077071.1:p.Arg1084Gly
NP_001077072.1:p.Arg1149Gly
NP_001077073.1:p.Arg999Gly
NP_001077074.1:p.Arg999Gly
NP_001077075.1:p.Arg999Gly
NP_001077076.1:p.Arg999Gly
NP_001341847.1:p.Arg1098Gly
LRG_515t1:c.3448A>G
LRG_515t2:c.3250A>G
LRG_515:g.68487A>G
LRG_515p1:p.Arg1150Gly
LRG_515p2:p.Arg1084Gly
NC_000009.11:g.98215761T>C
NM_000264.3:c.3448A>G
NM_001083602.1:c.3250A>G
NR_149061.2:n.4187A>G

Protein change:

R1084G

Molecular consequence:

NM_000264.5:c.3448A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001083602.3:c.3250A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001083603.3:c.3445A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001083604.3:c.2995A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001083605.3:c.2995A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001083606.3:c.2995A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001083607.3:c.2995A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001354918.2:c.3292A>G - missense variant - [Sequence Ontology: SO:0001583]
NR_149061.2:n.4187A>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:: Gorlin syndrome
Synonyms:: Basal cell nevus syndrome
Identifiers:: MONDO: MONDO:0007187; MedGen: C0004779; Orphanet: 377; OMIM: PS109400

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004524057	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Aug 17, 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

SCV004524057

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Aug 17, 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, SCV004524057.1

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

Description

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. An algorithm developed to predict the effect of missense changes on protein structure and function (PolyPhen-2) suggests that this variant is likely to be disruptive. This variant has not been reported in the literature in individuals affected with PTCH1-related conditions. This variant is present in population databases (rs753067741, gnomAD 0.0009%). This sequence change replaces arginine, which is basic and polar, with glycine, which is neutral and non-polar, at codon 1150 of the PTCH1 protein (p.Arg1150Gly).

#	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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