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NM_017951.5(SMPD4):c.1660-28_1666del AND Neurodevelopmental disorder with microcephaly, arthrogryposis, and structural brain anomalies

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Mar 25, 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:
RCV003989083.3

Allele description [Variation Report for NM_017951.5(SMPD4):c.1660-28_1666del]

NM_017951.5(SMPD4):c.1660-28_1666del

Gene:
SMPD4:sphingomyelin phosphodiesterase 4 [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
2q21.1
Genomic location:
Preferred name:
NM_017951.5(SMPD4):c.1660-28_1666del
HGVS:
  • NC_000002.12:g.130153936_130153970del
  • NG_053070.1:g.33788_33822del
  • NM_001171083.2:c.1471-28_1477del
  • NM_017751.4:c.1690-28_1696del
  • NM_017951.5:c.1660-28_1666delMANE SELECT
  • NC_000002.11:g.130911509_130911543del
  • NM_017951.4:c.1777-28_1783del
Molecular consequence:
  • NM_001171083.2:c.1471-28_1477del - splice acceptor variant - [Sequence Ontology: SO:0001574]
  • NM_017751.4:c.1690-28_1696del - splice acceptor variant - [Sequence Ontology: SO:0001574]
  • NM_017951.5:c.1660-28_1666del - splice acceptor variant - [Sequence Ontology: SO:0001574]

Condition(s)

Name:
Neurodevelopmental disorder with microcephaly, arthrogryposis, and structural brain anomalies
Identifiers:
MONDO: MONDO:0032838; MedGen: C5231431; OMIM: 618622

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004805610Center for Genomic Medicine, King Faisal Specialist Hospital and Research Center
criteria provided, single submitter

(ACMG Guidelines, 2015)		Likely pathogenic
(Mar 25, 2024) 		germlineresearch

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedresearch

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 Center for Genomic Medicine, King Faisal Specialist Hospital and Research Center, SCV004805610.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedresearch PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Sep 16, 2024