NM_133642.5(LARGE1):c.1452-209T>C AND not provided

Germline classification:: Benign (1 submission)
Last evaluated:: Jun 18, 2018
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:: RCV000838012.1

Allele description [Variation Report for NM_133642.5(LARGE1):c.1452-209T>C]

NM_133642.5(LARGE1):c.1452-209T>C

Gene:

LARGE1:LARGE xylosyl- and glucuronyltransferase 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

22q12.3

Genomic location:

Preferred name:

NM_133642.5(LARGE1):c.1452-209T>C

HGVS:

NC_000022.11:g.33304716A>G
NG_009929.2:g.620713T>C
NM_001362949.2:c.1452-209T>C
NM_001362951.2:c.1452-209T>C
NM_001362953.2:c.1452-209T>C
NM_001378624.1:c.1452-209T>C
NM_001378625.1:c.1452-209T>C
NM_001378626.1:c.1452-209T>C
NM_001378627.1:c.1452-209T>C
NM_001378628.1:c.1452-209T>C
NM_001378629.1:c.1296-209T>C
NM_001378630.1:c.849-209T>C
NM_001378631.1:c.693-209T>C
NM_004737.7:c.1452-209T>C
NM_133642.5:c.1452-209T>CMANE SELECT
LRG_856t1:c.1452-209T>C
LRG_856t2:c.1452-209T>C
LRG_856:g.620713T>C
NC_000022.10:g.33700702A>G
NM_004737.4:c.1452-209T>C

Links:

dbSNP: rs79121173

NCBI 1000 Genomes Browser:

rs79121173

Molecular consequence:

NM_001362949.2:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001362951.2:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001362953.2:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378624.1:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378625.1:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378626.1:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378627.1:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378628.1:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378629.1:c.1296-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378630.1:c.849-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_001378631.1:c.693-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_004737.7:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]
NM_133642.5:c.1452-209T>C - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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PREDICTED: Rattus norvegicus ubiquitin specific peptidase 3 (Usp3), transcript v...
PREDICTED: Rattus norvegicus ubiquitin specific peptidase 3 (Usp3), transcript variant X3, mRNA
gi|2678965753|ref|XM_039081751.2|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000979876	GeneDx	criteria provided, single submitter (GeneDx Variant Classification (06012015))	Benign (Jun 18, 2018)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000979876

GeneDx

criteria provided, single submitter

(GeneDx Variant Classification (06012015))

Benign
(Jun 18, 2018)

germline

clinical testing

Citation Link

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	yes	not provided	not provided	not provided	not provided	not provided	clinical testing

Details of each submission

From GeneDx, SCV000979876.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	not provided

Description

This variant is considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	yes	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Dec 24, 2023

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