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GRCh37/hg19 5q35.2-35.3(chr5:175438045-177481250)x1 AND not provided

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Sep 10, 2021
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:
RCV000682614.4

Allele description [Variation Report for GRCh37/hg19 5q35.2-35.3(chr5:175438045-177481250)x1]

GRCh37/hg19 5q35.2-35.3(chr5:175438045-177481250)x1

Genes:
Variant type:
copy number loss
Cytogenetic location:
5q35.2-35.3
Genomic location:
Chr5: 175438045 - 177481250 (on Assembly GRCh37)
Preferred name:
GRCh37/hg19 5q35.2-35.3(chr5:175438045-177481250)x1
HGVS:
NC_000005.9:g.(?_175438045)_(177481250_?)del

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: CN517202

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000810121Quest Diagnostics Nichols Institute San Juan Capistrano
criteria provided, single submitter

(ACMG/ClinGen CNV Guidelines, 2019)
Pathogenic
(Sep 10, 2021)
unknownclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Technical standards for the interpretation and reporting of constitutional copy-number variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics (ACMG) and the Clinical Genome Resource (ClinGen).

Riggs ER, Andersen EF, Cherry AM, Kantarci S, Kearney H, Patel A, Raca G, Ritter DI, South ST, Thorland EC, Pineda-Alvarez D, Aradhya S, Martin CL.

Genet Med. 2020 Feb;22(2):245-257. doi: 10.1038/s41436-019-0686-8. Epub 2019 Nov 6. Erratum in: Genet Med. 2021 Nov;23(11):2230. doi: 10.1038/s41436-021-01150-9.

PubMed [citation]
PMID:
31690835
PMCID:
PMC7313390

Details of each submission

From Quest Diagnostics Nichols Institute San Juan Capistrano, SCV000810121.4

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

This is a recurrent microdeletion that associates with Sotos syndrome (Gene Reviews: http://www.ncbi.nlm.nih.gov/books/NBK1479/). This microdeletion is thought to account for approximately 50% of Japanese and an approximately 15% of non-Japanese Sotos syndrome cases. It includes the NSD1 gene, haploinsufficiency of which is associated with autosomal dominant Sotos syndrome (OMIM 117550). Sotos syndrome is characterized by a distinctive facial appearance (broad and prominent forehead, sparse frontotemporal hair, downslanting palpebral fissures, malar flushing, long and narrow face, long chin); learning disability (early developmental delay, mild to severe intellectual impairment); and overgrowth (height and/or head circumference =2 SD above the mean). These three clinical features are considered the cardinal features of Sotos syndrome. Other major features of Sotos syndrome include behavioral problems, advanced bone age, cardiac anomalies, cranial MRI/CT abnormalities, joint hyperlaxity / pes planus, maternal preeclampsia, neonatal jaundice, neonatal hypotonia, renal anomalies, scoliosis, and seizures. More than 95% of cases are de novo.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1unknownunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Mar 26, 2023