ClinVar Miner

Submissions for variant NM_000112.4(SLC26A2):c.2033G>T (p.Gly678Val)

gnomAD frequency: 0.00002  dbSNP: rs104893916
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Counsyl RCV000169017 SCV000220161 likely pathogenic Multiple epiphyseal dysplasia type 4 2014-03-16 criteria provided, single submitter literature only
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV003234891 SCV003934286 likely pathogenic Osteochondrodysplasia 2023-05-01 criteria provided, single submitter clinical testing Variant summary: SLC26A2 c.2033G>T (p.Gly678Val) results in a non-conservative amino acid change located in the STAS domain (IPR002645) of the encoded protein sequence. Five of five in-silico tools predict a damaging effect of the variant on protein function. The variant allele was found at a frequency of 4e-06 in 251126 control chromosomes. c.2033G>T has been reported in the literature as a compound heterozygous genotype with a null allele in at-least one individual affected with Sulfate Transporter-Related Osteochondrodysplasia (example, Karniski_2001 citing Superti-Furga_1996). Multiple publications report experimental evidence evaluating an impact on protein function (example, Karniski_2001, Karniski_2004, Rapp_2019). The most pronounced variant effect results in <10% of normal sulfate transport activity in-vitro when analyzed in mammalian cell system (Karniski_2004) however retained partial function when expressed in Xenopus oocytes (Karniski_2001). Another recent study reported ER retention and degradation by ER-associated degradation (ERAD) (Rapp_2019). The following publications have been ascertained in the context of this evaluation (PMID: 11448940, 15294877, 30462520, 8723100). No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar after 2014. Based on the evidence outlined above, the variant was classified as likely pathogenic.
OMIM RCV000023570 SCV000044861 pathogenic Achondrogenesis, type IB 1996-01-01 no assertion criteria provided literature only
GeneReviews RCV000055761 SCV000086701 not provided Diastrophic dysplasia no assertion provided literature only

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