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NM_030962.4(SBF2):c.5451+3_5451+6dup AND Charcot-Marie-Tooth disease type 4

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Nov 28, 2022
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:
RCV002044920.8

Allele description [Variation Report for NM_030962.4(SBF2):c.5451+3_5451+6dup]

NM_030962.4(SBF2):c.5451+3_5451+6dup

Genes:
SBF2-AS1:SBF2 antisense RNA 1 [Gene - HGNC]
SBF2:SET binding factor 2 [Gene - OMIM - HGNC]
LOC105369149:uncharacterized LOC105369149 [Gene]
Variant type:
Duplication
Cytogenetic location:
11p15.4
Genomic location:
Preferred name:
NM_030962.4(SBF2):c.5451+3_5451+6dup
HGVS:
  • NC_000011.10:g.9781503_9781506dup
  • NG_008074.1:g.517704_517707dup
  • NM_001386339.1:c.5547+3_5547+6dup
  • NM_001386342.1:c.5322+3_5322+6dup
  • NM_030962.4:c.5451+3_5451+6dupMANE SELECT
  • LRG_267:g.517704_517707dup
  • NC_000011.9:g.9803047_9803048insACTT
  • NC_000011.9:g.9803050_9803053dup
Links:
dbSNP: rs1428808794
NCBI 1000 Genomes Browser:
rs1428808794
Molecular consequence:
  • NM_001386339.1:c.5547+3_5547+6dup - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_001386342.1:c.5322+3_5322+6dup - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_030962.4:c.5451+3_5451+6dup - splice donor variant - [Sequence Ontology: SO:0001575]

Condition(s)

Name:
Charcot-Marie-Tooth disease type 4
Synonyms:
Charcot-Marie-Tooth, Type 4
Identifiers:
MONDO: MONDO:0018995; MedGen: C4082197

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002112747Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(Nov 28, 2022) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot 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 Labcorp Genetics (formerly Invitae), Labcorp, SCV002112747.3

#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. Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may create or strengthen a splice site. ClinVar contains an entry for this variant (Variation ID: 1351692). This variant has not been reported in the literature in individuals affected with SBF2-related conditions. This variant is not present in population databases (gnomAD no frequency). This sequence change falls in intron 39 of the SBF2 gene. It does not directly change the encoded amino acid sequence of the SBF2 protein.

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

Last Updated: Sep 29, 2024