Submissions for variant NM_014855.3(AP5Z1):c.2400G>A (p.Arg800=)

gnomAD frequency: 0.00030  dbSNP: rs368571200

Total submissions: 6

Submitter	RCV	SCV	Clinical significance	Condition	Last evaluated	Review status	Method	Comment
Invitae	RCV001088873	SCV000290021	benign	Hereditary spastic paraplegia 48	2023-12-05	criteria provided, single submitter	clinical testing
Illumina Laboratory Services, Illumina	RCV001088873	SCV000469507	uncertain significance	Hereditary spastic paraplegia 48	2018-01-13	criteria provided, single submitter	clinical testing	This variant was observed in the ICSL laboratory as part of a predisposition screen in an ostensibly healthy population. It had not been previously curated by ICSL or reported in the Human Gene Mutation Database (HGMD: prior to June 1st, 2018), and was therefore a candidate for classification through an automated scoring system. Utilizing variant allele frequency, disease prevalence and penetrance estimates, and inheritance mode, an automated score was calculated to assess if this variant is too frequent to cause the disease. Based on the score, this variant could not be ruled out of causing disease and therefore its association with disease required further investigation. A literature search was performed for the gene, cDNA change, and amino acid change (if applicable). No publications were found based on this search. This variant was therefore classified as a variant of unknown significance for this disease.
Athena Diagnostics Inc	RCV000226378	SCV001143048	benign	not provided	2019-07-16	criteria provided, single submitter	clinical testing
Genome Diagnostics Laboratory, The Hospital for Sick Children	RCV001847985	SCV002106188	likely benign	Hereditary spastic paraplegia	2018-01-01	criteria provided, single submitter	clinical testing
CeGaT Center for Human Genetics Tuebingen	RCV000226378	SCV004158853	likely benign	not provided	2023-07-01	criteria provided, single submitter	clinical testing	AP5Z1: BP4, BP7
PreventionGenetics, part of Exact Sciences	RCV003907888	SCV004723770	likely benign	AP5Z1-related condition	2019-02-22	criteria provided, single submitter	clinical testing	This variant is classified as likely benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications).