ClinVar Miner

Submissions for variant NM_018389.5(SLC35C1):c.890A>G (p.Asn297Ser)

gnomAD frequency: 0.00006  dbSNP: rs756683159
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Labcorp Genetics (formerly Invitae), Labcorp RCV000803906 SCV000943794 uncertain significance Leukocyte adhesion deficiency type II 2024-01-08 criteria provided, single submitter clinical testing This sequence change replaces asparagine, which is neutral and polar, with serine, which is neutral and polar, at codon 297 of the SLC35C1 protein (p.Asn297Ser). This variant is present in population databases (rs756683159, gnomAD 0.01%). This variant has not been reported in the literature in individuals affected with SLC35C1-related conditions. ClinVar contains an entry for this variant (Variation ID: 649048). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is not expected to disrupt SLC35C1 protein function with a negative predictive value of 80%. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.
Illumina Laboratory Services, Illumina RCV000803906 SCV001260152 uncertain significance Leukocyte adhesion deficiency type II 2017-04-27 criteria provided, single submitter clinical testing This variant was observed as part of a predisposition screen in an ostensibly healthy population. A literature search was performed for the gene, cDNA change, and amino acid change (where applicable). No publications were found based on this search. Allele frequency data from public databases did not allow this variant to be ruled in or out of causing disease. Therefore, this variant is classified as a variant of unknown significance.
Fulgent Genetics, Fulgent Genetics RCV000803906 SCV002783746 uncertain significance Leukocyte adhesion deficiency type II 2022-02-04 criteria provided, single submitter clinical testing
Ambry Genetics RCV004028158 SCV004949692 uncertain significance Inborn genetic diseases 2024-02-28 criteria provided, single submitter clinical testing The c.890A>G (p.N297S) alteration is located in exon 2 (coding exon 2) of the SLC35C1 gene. This alteration results from a A to G substitution at nucleotide position 890, causing the asparagine (N) at amino acid position 297 to be replaced by a serine (S). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear.

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