ClinVar Miner

Submissions for variant NM_000124.4(ERCC6):c.2203C>T (p.Arg735Ter) (rs121917901)

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Total submissions: 10
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Claritas Genomics RCV000001769 SCV000222794 pathogenic Cockayne syndrome B 2012-01-09 criteria provided, single submitter clinical testing
Illumina Clinical Services Laboratory,Illumina RCV000406377 SCV000362890 pathogenic ERCC6-Related Disorders 2017-04-28 criteria provided, single submitter clinical testing The ERCC6 c.2203C>T (p.Arg735Ter) variant is a stop-gained variant predicted to result in permature termination of the protein. The p.Arg735Ter variant has been reported in at least three studies in which it is found in a total of five patients, including one homozygote and two compound heterozygotes with Cockayne syndrome, and two homozygotes with de Sanctis-Cacchione syndrome (Mallery et al. 1998; Colella et al. 2000; Laugel et al. 2010). Control data are unavailable for this variant which is reported at a frequency of 0.00015 in the European (non-Finnish) population of the Exome Aggregation Consortium. Functional studies using primary fibroblast cell lines derived from patients with the p.Arg735Ter variant showed that the variant was associated with defective telomere maintenance as well as increased reactive oxygen species and mitochondrial oxidative stress but was not associated with nuclear DNA damage (Batenburg et al. 2012; Cleaver et al. 2014). Functional studies of induced pluripotent stem cells derived from skin fibroblasts carrying the p.Arg735Ter variant also showed that the lack of functional CSB protein caused by the variant did not prevent genetic reprogramming but did increase cell death and reactive oxygen species production (Andrade et al. 2012). Further, in a telomerase-immortalized cell line carrying the p.Arg375Ter variant in a homozygous state, addition of wild type CSB showed a significant decrease in the amount of cells with IR-induced 53BP1 foci and a significantly increased amount of cells with cyclin A and IR-induced foci of BRCA1, RPA, and Rad51, suggesting there is defective homologous recombination-mediated double strand break repair (Batenburg et al. 2015). Based on the collective evidence and the potential impact of stop-gained variants, the p.Arg275Ter variant is classified as pathogenic for ERCC6-related disorders. This variant was observed by ICSL as part of a predisposition screen in an ostensibly healthy population.
Genetic Services Laboratory,University of Chicago RCV000001769 SCV000594582 pathogenic Cockayne syndrome B 2016-02-29 criteria provided, single submitter clinical testing
GeneDx RCV000521977 SCV000617667 pathogenic not provided 2018-01-23 criteria provided, single submitter clinical testing The R735X variant in the ERCC6 gene has been reported previously in association with Cockayne syndrome, when present in the homozygous state or heterozygous with another disease-causing variant (Mallery et al., 1998). This variant is predicted to cause loss of normal protein function either through protein truncation or nonsense-mediated mRNA decay. The R735X variant is not observed at a significant frequency in large population cohorts (Lek et al., 2016; 1000 Genomes Consortium et al., 2015; Exome Variant Server). We interpret R735X as a pathogenic variant.
Fulgent Genetics,Fulgent Genetics RCV000762810 SCV000893161 pathogenic DE SANCTIS-CACCHIONE SYNDROME; Cerebrooculofacioskeletal syndrome 1; Cockayne syndrome B; Lung carcinoma; UV-sensitive syndrome 1; Age-related macular degeneration 5; Premature ovarian failure 11 2018-10-31 criteria provided, single submitter clinical testing
Invitae RCV000521977 SCV000937297 pathogenic not provided 2019-12-04 criteria provided, single submitter clinical testing This sequence change creates a premature translational stop signal (p.Arg735*) in the ERCC6 gene. It is expected to result in an absent or disrupted protein product. This variant is present in population databases (rs121917901, ExAC 0.01%). This variant has been observed in individuals affected with Cockayne syndrome (PMID: 9443879). ClinVar contains an entry for this variant (Variation ID: 1701). Loss-of-function variants in ERCC6 are known to be pathogenic (PMID: 9443879, 18628313). For these reasons, this variant has been classified as Pathogenic.
Centre for Mendelian Genomics,University Medical Centre Ljubljana RCV001199022 SCV001370017 pathogenic Cerebrooculofacioskeletal syndrome 1 2019-02-11 criteria provided, single submitter clinical testing This variant was classified as: Pathogenic. The following ACMG criteria were applied in classifying this variant: PVS1,PM2,PP5.
OMIM RCV000001769 SCV000021925 pathogenic Cockayne syndrome B 2000-05-01 no assertion criteria provided literature only
OMIM RCV000001770 SCV000021926 pathogenic DE SANCTIS-CACCHIONE SYNDROME 2000-05-01 no assertion criteria provided literature only
Counsyl RCV000001770 SCV000790360 pathogenic DE SANCTIS-CACCHIONE SYNDROME 2017-03-16 no assertion criteria provided clinical testing

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