NM_000466.3(PEX1):c.2718+3A>G AND Zellweger spectrum disorders

Germline classification:: Benign (2 submissions)
Last evaluated:: Nov 27, 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:: RCV001507157.9

Allele description [Variation Report for NM_000466.3(PEX1):c.2718+3A>G]

NM_000466.3(PEX1):c.2718+3A>G

Gene:

PEX1:peroxisomal biogenesis factor 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

7q21.2

Genomic location:

Preferred name:

NM_000466.3(PEX1):c.2718+3A>G

HGVS:

NC_000007.14:g.92499701T>C
NG_008341.2:g.33831A>G
NM_000466.3:c.2718+3A>GMANE SELECT
NM_001282677.2:c.2547+3A>G
NM_001282678.2:c.2094+3A>G
NC_000007.13:g.92129015T>C
NG_008341.1:g.33831A>G
NM_000466.2:c.2718+3A>G

Links:

dbSNP: rs370536529

NCBI 1000 Genomes Browser:

rs370536529

Molecular consequence:

NM_000466.3:c.2718+3A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001282677.2:c.2547+3A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001282678.2:c.2094+3A>G - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Name:: Zellweger spectrum disorders (ZS)
Synonyms:: Zellweger syndrome; Zellweger Spectrum Disorder; Zellweger Spectrum
Identifiers:: MONDO: MONDO:0019609; MedGen: C0043459; Orphanet: 912

Recent activity

Clear Turn Off Turn On

BioSample links for Nucleotide (Select 2250746541) (1)
BioSample
Microbe sample from Halomarina rubra
Microbe sample from Halomarina rubra

biosample

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

Help

Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001028261	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Benign (Nov 27, 2023)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]
SCV002076848	Natera, Inc.	no assertion criteria provided	Benign (May 11, 2017)	germline	clinical testing

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV001028261

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Benign
(Nov 27, 2023)

germline

clinical testing

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

SCV002076848

Natera, Inc.

no assertion criteria provided

Benign
(May 11, 2017)

germline

clinical testing

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical 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, SCV001028261.6

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

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

From Natera, Inc., SCV002076848.1

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

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

Last Updated: Sep 29, 2024

ClinVar

Relating variation to medicine