NM_000492.4(CFTR):c.3274T>C (p.Tyr1092His) AND CFTR-related disorder

Germline classification:: Uncertain significance (2 submissions)
Last evaluated:: Dec 14, 2022
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:: RCV001829623.10

Allele description [Variation Report for NM_000492.4(CFTR):c.3274T>C (p.Tyr1092His)]

NM_000492.4(CFTR):c.3274T>C (p.Tyr1092His)

Genes:

CFTR:CF transmembrane conductance regulator [Gene - OMIM - HGNC]
LOC111674472:DNase I hypersensitive sites in introns 16 and 17a of CFTR [Gene]

Variant type:

single nucleotide variant

Cytogenetic location:

7q31.2

Genomic location:

Preferred name:

NM_000492.4(CFTR):c.3274T>C (p.Tyr1092His)

HGVS:

NC_000007.14:g.117611715T>C
NG_016465.4:g.150932T>C
NG_056128.2:g.4769T>C
NM_000492.4:c.3274T>CMANE SELECT
NP_000483.3:p.Tyr1092His
NP_000483.3:p.Tyr1092His
LRG_663t1:c.3274T>C
LRG_663:g.150932T>C
LRG_663p1:p.Tyr1092His
NC_000007.13:g.117251769T>C
NM_000492.3:c.3274T>C
p.Tyr1092His

Protein change:

Y1092H

Links:

dbSNP: rs376968326

NCBI 1000 Genomes Browser:

rs376968326

Molecular consequence:

NM_000492.4:c.3274T>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: CFTR-related disorder (CFTR-RD)
Synonyms:: CFTR-related disorders; CFTR-related condition
Identifiers:

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002083620	Natera, Inc.	no assertion criteria provided	Uncertain significance (Jun 6, 2018)	germline	clinical testing
SCV004118129	PreventionGenetics, part of Exact Sciences	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Dec 14, 2022)	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

SCV002083620

Natera, Inc.

no assertion criteria provided

Uncertain significance
(Jun 6, 2018)

germline

clinical testing

SCV004118129

PreventionGenetics, part of Exact Sciences

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Dec 14, 2022)

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

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]

PMID:: 25741868
PMCID:: PMC4544753

Details of each submission

From Natera, Inc., SCV002083620.1

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

#	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

From PreventionGenetics, part of Exact Sciences, SCV004118129.1

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

Description

The CFTR c.3274T>C variant is predicted to result in the amino acid substitution p.Tyr1092His. This variant has been reported in two patients with cystic fibrosis (Table S3, Trujillano et al. 2013. PubMed ID: 23687349; Table 1, Prontera et al. 2016. PubMed ID: 27728908) and in one patient with bronchiectasis (https://www.redalyc.org/journal/6357/635766604013/html/). This variant was also found in a patient with unknown phenotype as part of a newborn screening program (Tabor et al. 2014. PubMed ID: 25087612). However, no further evidence of its pathogenicity was provided regarding segregation with disease in families or functional data. This variant is reported in 0.0047% of alleles in individuals of European (Non-Finnish) descent in gnomAD (http://gnomad.broadinstitute.org/variant/7-117251769-T-C). Although we suspect that this variant may be pathogenic, at this time, the clinical significance of this variant is uncertain due to the absence of conclusive functional and genetic evidence.

#	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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