NM_006767.4(LZTR1):c.27del (p.Gln10fs) AND multiple conditions

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Jun 13, 2024
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:: RCV005025221.1

Allele description [Variation Report for NM_006767.4(LZTR1):c.27del (p.Gln10fs)]

NM_006767.4(LZTR1):c.27del (p.Gln10fs)

Genes:

LOC130067016:ATAC-STARR-seq lymphoblastoid silent region 13504 [Gene]
LZTR1:leucine zipper like post translational regulator 1 [Gene - OMIM - HGNC]

Variant type:

Deletion

Cytogenetic location:

22q11.21

Genomic location:

Preferred name:

NM_006767.4(LZTR1):c.27del (p.Gln10fs)

HGVS:

NC_000022.11:g.20982398del
NG_034193.1:g.5130del
NM_006767.4:c.27delMANE SELECT
NP_006758.2:p.Gln10fs
LRG_989t1:c.27del
LRG_989:g.5130del
LRG_989p1:p.Gln10fs
NC_000022.10:g.21336681del
NC_000022.10:g.21336687del
NM_006767.3:c.27del
NM_006767.3:c.27delG
NM_006767.4:c.27delGMANE SELECT

Protein change:

Q10fs

Links:

OMIM: 600574.0004; dbSNP: rs587777613

Molecular consequence:

NM_006767.4:c.27del - frameshift variant - [Sequence Ontology: SO:0001589]

Condition(s)

Name:: Noonan syndrome 2 (NS2)
Identifiers:: MONDO: MONDO:0011531; MedGen: C1854469; Orphanet: 648; OMIM: 605275

Name:: LZTR1-related schwannomatosis
Synonyms:: Schwannomatosis 2; Schwannomatosis-2, susceptibility to
Identifiers:: MONDO: MONDO:0014299; MedGen: C3810283; Orphanet: 93921; OMIM: 615670

Name:: Noonan syndrome 10 (NS10)
Identifiers:: MONDO: MONDO:0014693; MedGen: C4225280; Orphanet: 648; OMIM: 616564

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV005656712	Fulgent Genetics, Fulgent Genetics	criteria provided, single submitter (ACMG Guidelines, 2015)	Pathogenic (Jun 13, 2024)	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

SCV005656712

Fulgent Genetics, Fulgent Genetics

criteria provided, single submitter

(ACMG Guidelines, 2015)

Pathogenic
(Jun 13, 2024)

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 Fulgent Genetics, Fulgent Genetics, SCV005656712.1

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

#	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: Jun 20, 2026

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