ClinVar Miner

Submissions for variant NM_001009944.3(PKD1):c.8161+12C>T

gnomAD frequency: 0.00113  dbSNP: rs375283810
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
PreventionGenetics, part of Exact Sciences RCV000249966 SCV000305787 likely benign not specified criteria provided, single submitter clinical testing
Fulgent Genetics, Fulgent Genetics RCV002487122 SCV002798459 likely benign Polycystic kidney disease, adult type 2021-09-01 criteria provided, single submitter clinical testing
CeGaT Center for Human Genetics Tuebingen RCV001353770 SCV004142844 benign not provided 2022-07-01 criteria provided, single submitter clinical testing PKD1: BS1, BS2
Department of Pathology and Laboratory Medicine, Sinai Health System RCV001353770 SCV000592816 likely benign not provided no assertion criteria provided clinical testing The PKD1 c.8161+12C>T variant was not identified in the literature. The c.8161+12C>T variant was identified in dbSNP (ID: rs375283810) as “NA” and ADPKD Mutation Database (as likely neutral). The c.8161+12C>T variant was identified in the 1000 Genomes Project in 10 of 5000 chromosomes (frequency: 0.002), NHLBI GO Exome Sequencing Project in 3 of 7768 European American and in 3 of 3774 African American alleles. The variant also was identified in the Exome Aggregation Consortium database (March 14, 2016) in 15 of 18810 chromosomes (freq. 0.0008) in the following populations: European (Non-Finnish) in 8 of 7356 chromosomes (freq. 0.001), African in 5 of 1234 chromosomes (freq. 0.004), South Asian in 1 of 8084 chromosomes (freq. 0.0001), and Other in 1 of 166 chromosomes (freq. 0.006), but was not seen in East Asian, Finnish and Latino populations, increasing the likelihood this could be a low frequency benign variant in some populations. However we cannot be certain that data from control databases is specific to PKD1 and not from one of the six PKD1 pseudogenes. The c.8161+12C>T variant is located in the 5' splice region but does not affect the invariant +1 and +2 positions. In addition, in silico or computational prediction software programs (SpliceSiteFinder, MaxEntScan, NNSPLICE, GeneSplicer, HumanSpliceFinder) do not predict a difference in splicing. In summary, based on the above information, this variant meets our laboratory's criteria to be classified as likely benign.

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