ClinVar Miner

Submissions for variant NM_000393.5(COL5A2):c.1302G>A (p.Thr434=)

gnomAD frequency: 0.00001  dbSNP: rs376170776
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Labcorp Genetics (formerly Invitae), Labcorp RCV002232957 SCV000832806 likely pathogenic Ehlers-Danlos syndrome, classic type, 1 2024-01-11 criteria provided, single submitter clinical testing This sequence change affects codon 434 of the COL5A2 mRNA. It is a 'silent' change, meaning that it does not change the encoded amino acid sequence of the COL5A2 protein. This variant also falls at the last nucleotide of exon 20, which is part of the consensus splice site for this exon. This variant is present in population databases (rs376170776, gnomAD 0.004%). This variant has been observed in individual(s) with clinical features of COL5A2-related conditions (Invitae). ClinVar contains an entry for this variant (Variation ID: 580367). Variants that disrupt the consensus splice site are a relatively common cause of aberrant splicing (PMID: 17576681, 9536098). Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant is not likely to affect RNA splicing. In summary, the currently available evidence indicates that the variant is pathogenic, but additional data are needed to prove that conclusively. Therefore, this variant has been classified as Likely Pathogenic.
GeneDx RCV001662777 SCV001873824 likely benign not provided 2018-08-24 criteria provided, single submitter clinical testing

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