NM_000124.4(ERCC6):c.3460dup (p.Ser1154fs) AND not provided

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Oct 22, 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:: RCV003580941.2

Allele description [Variation Report for NM_000124.4(ERCC6):c.3460dup (p.Ser1154fs)]

NM_000124.4(ERCC6):c.3460dup (p.Ser1154fs)

Gene:

ERCC6:ERCC excision repair 6, chromatin remodeling factor [Gene - OMIM - HGNC]

Variant type:

Duplication

Cytogenetic location:

10q11.23

Genomic location:

Preferred name:

NM_000124.4(ERCC6):c.3460dup (p.Ser1154fs)

HGVS:

NC_000010.11:g.49470502dup
NG_009442.1:g.73602dup
NM_000124.4:c.3460dupMANE SELECT
NM_001346440.2:c.3460dup
NP_000115.1:p.Ser1154Phefs
NP_000115.1:p.Ser1154fs
NP_001333369.1:p.Ser1154fs
LRG_465t1:c.3458dup
LRG_465:g.73602dup
LRG_465p1:p.Ser1154Phefs
NC_000010.10:g.50678545_50678546insA
NC_000010.10:g.50678548dup
NM_000124.2:c.3458dup

Protein change:

S1154fs

Molecular consequence:

NM_000124.4:c.3460dup - frameshift variant - [Sequence Ontology: SO:0001589]
NM_001346440.2:c.3460dup - frameshift variant - [Sequence Ontology: SO:0001589]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

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Salmonella enterica subsp. enterica serovar Typhi strain KOL496 k496_contig_98, ...
Salmonella enterica subsp. enterica serovar Typhi strain KOL496 k496_contig_98, whole genome shotgun sequence
gi|1980750687|ref|NZ_JABVAT01000009 gnl|WGS:NZ_JABVAT01|k496_contig_98

Nucleotide
Salmonella enterica subsp. enterica serovar Typhi strain 5330 NODE_18_length_106...
Salmonella enterica subsp. enterica serovar Typhi strain 5330 NODE_18_length_106833_cov_7.368752, whole genome shotgun sequence
gi|1691174459|ref|NZ_SQRK01000009.1 |WGS:NZ_SQRK01|NODE_18_length_106833_cov_7.368752

Nucleotide
glyceraldehyde-3-phosphate dehydrogenase, partial [Klebsiella sp. P0643]
glyceraldehyde-3-phosphate dehydrogenase, partial [Klebsiella sp. P0643]
gi|222522767|gb|ACM63075.1|

Protein
An14g01070 [Aspergillus niger]
An14g01070 [Aspergillus niger]
Gene ID:4986962

Gene

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004337699	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Pathogenic (Oct 22, 2023)	germline	clinical testing	PubMed (3) [See all records that cite these PMIDs] 18628313, 29572252, 28492532

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV004337699

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Pathogenic
(Oct 22, 2023)

germline

clinical testing

PubMed (3)
[See all records that cite these PMIDs]

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

Cerebro-oculo-facio-skeletal syndrome: three additional cases with CSB mutations, new diagnostic criteria and an approach to investigation.

Laugel V, Dalloz C, Tobias ES, Tolmie JL, Martin-Coignard D, Drouin-Garraud V, Valayannopoulos V, Sarasin A, Dollfus H.

J Med Genet. 2008 Sep;45(9):564-71. doi: 10.1136/jmg.2007.057141. Epub 2008 Jul 15.

PubMed [citation]

PMID:: 18628313

Functional and clinical relevance of novel mutations in a large cohort of patients with Cockayne syndrome.

Calmels N, Botta E, Jia N, Fawcett H, Nardo T, Nakazawa Y, Lanzafame M, Moriwaki S, Sugita K, Kubota M, Obringer C, Spitz MA, Stefanini M, Laugel V, Orioli D, Ogi T, Lehmann AR.

J Med Genet. 2018 May;55(5):329-343. doi: 10.1136/jmedgenet-2017-104877. Epub 2018 Mar 23.

PubMed [citation]

PMID:: 29572252

See all PubMed Citations (3)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV004337699.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (3)

Description

This sequence change creates a premature translational stop signal (p.Ser1154Phefs*19) in the ERCC6 gene. It is expected to result in an absent or disrupted protein product. Loss-of-function variants in ERCC6 are known to be pathogenic (PMID: 18628313, 29572252). This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with ERCC6-related conditions. For these reasons, this variant has been classified as Pathogenic.

#	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

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