NM_002334.4(LRP4):c.2436T>C (p.Asp812=) AND multiple conditions

Germline classification:: Likely benign (2 submissions)
Last evaluated:: Dec 22, 2023
Review status:: 2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts

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:: RCV000960756.9

Allele description [Variation Report for NM_002334.4(LRP4):c.2436T>C (p.Asp812=)]

NM_002334.4(LRP4):c.2436T>C (p.Asp812=)

Gene:

LRP4:LDL receptor related protein 4 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

11p11.2

Genomic location:

Preferred name:

NM_002334.4(LRP4):c.2436T>C (p.Asp812=)

HGVS:

NC_000011.10:g.46886161A>G
NG_021394.1:g.37462T>C
NM_002334.4:c.2436T>CMANE SELECT
NP_002325.2:p.Asp812=
NC_000011.9:g.46907712A>G
NM_002334.3:c.2436T>C

Links:

dbSNP: rs201159730

NCBI 1000 Genomes Browser:

rs201159730

Molecular consequence:

NM_002334.4:c.2436T>C - synonymous variant - [Sequence Ontology: SO:0001819]

Condition(s)

Name:: Cenani-Lenz syndactyly syndrome
Synonyms:: SYNDACTYLY, TYPE VII; Syndactyly Cenani Lenz type; Cenani syndactylism; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0008931; MedGen: C1859309; Orphanet: 3258; OMIM: 212780

Name:: Sclerosteosis 2 (SOST2)
Identifiers:: MONDO: MONDO:0013679; MedGen: C3280402; Orphanet: 3152; OMIM: 614305

Name:: Congenital myasthenic syndrome 17
Identifiers:: MONDO: MONDO:0014578; MedGen: C4225377; Orphanet: 590; OMIM: 616304

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001107770	Invitae	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Likely benign (Dec 22, 2023)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]
SCV002795457	Fulgent Genetics, Fulgent Genetics	criteria provided, single submitter (ACMG Guidelines, 2015)	Likely benign (Sep 20, 2021)	unknown	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

SCV001107770

Invitae

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Likely benign
(Dec 22, 2023)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

SCV002795457

Fulgent Genetics, Fulgent Genetics

criteria provided, single submitter

(ACMG Guidelines, 2015)

Likely benign
(Sep 20, 2021)

unknown

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	unknown	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing
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):240-242.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

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 Invitae, SCV001107770.6

#	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

From Fulgent Genetics, Fulgent Genetics, SCV002795457.1

#	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	unknown	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Mar 5, 2024

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