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NC_000020.10:g.(?_35569422)_(36500415_?)dup AND Congenital disorder of glycosylation

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Feb 2, 2023
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:
RCV004579604.1

Allele description [Variation Report for NC_000020.10:g.(?_35569422)_(36500415_?)dup]

NC_000020.10:g.(?_35569422)_(36500415_?)dup

Genes:
  • BLCAP:BLCAP apoptosis inducing factor [Gene - OMIM - HGNC]
  • RBL1:RB transcriptional corepressor like 1 [Gene - OMIM - HGNC]
  • SAMHD1:SAM and HD domain containing deoxynucleoside triphosphate triphosphohydrolase 1 [Gene - OMIM - HGNC]
  • SRC:SRC proto-oncogene, non-receptor tyrosine kinase [Gene - OMIM - HGNC]
  • CTNNBL1:catenin beta like 1 [Gene - OMIM - HGNC]
  • GHRH:growth hormone releasing hormone [Gene - OMIM - HGNC]
  • MROH8:maestro heat like repeat family member 8 [Gene - HGNC]
  • MANBAL:mannosidase beta like [Gene - HGNC]
  • NNAT:neuronatin [Gene - OMIM - HGNC]
  • RPN2:ribophorin II [Gene - OMIM - HGNC]
Variant type:
Duplication
Cytogenetic location:
20q11.23
Genomic location:
Chr20: 35569422 - 36500415 (on Assembly GRCh37)
Preferred name:
NC_000020.10:g.(?_35569422)_(36500415_?)dup
HGVS:
NC_000020.10:g.(?_35569422)_(36500415_?)dup

Condition(s)

Name:
Congenital disorder of glycosylation (CDG)
Synonyms:
Carbohydrate-deficient glycoprotein syndrome; Congenital disorders of glycosylation
Identifiers:
MONDO: MONDO:0015286; MedGen: C0282577; Orphanet: 137

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV005068155Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(Feb 2, 2023) 		unknownclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedunknownunknownnot providednot providednot providednot providednot providedclinical 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. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]
PMID:
28492532
PMCID:
PMC5632818

Details of each submission

From Invitae, SCV005068155.1

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

Description

In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. This variant has not been reported in the literature in individuals affected with RPN2-related conditions. A copy number gain of the genomic region encompassing the full coding sequence of the RPN2 gene has been identified. The boundaries of this event are unknown as they extend beyond the assayed region for this gene and therefore may encompass additional genes. As the precise location of this event is unknown, it may be in tandem or it may be located elsewhere in the genome.

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

Last Updated: Jun 29, 2024