2-70179608-G-C
Variant summary
Our verdict is Uncertain significance. Variant got 2 ACMG points: 2P and 0B. PM2
The NM_017880.3(C2orf42):āc.858C>Gā(p.Cys286Trp) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000063 in 1,539,762 control chromosomes in the GnomAD database, with no homozygous occurrence. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_017880.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 2 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
C2orf42 | NM_017880.3 | c.858C>G | p.Cys286Trp | missense_variant | Exon 4 of 10 | ENST00000264434.7 | NP_060350.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
C2orf42 | ENST00000264434.7 | c.858C>G | p.Cys286Trp | missense_variant | Exon 4 of 10 | 1 | NM_017880.3 | ENSP00000264434.2 | ||
C2orf42 | ENST00000420306.1 | c.858C>G | p.Cys286Trp | missense_variant | Exon 2 of 8 | 2 | ENSP00000404515.1 |
Frequencies
GnomAD3 genomes AF: 0.0000922 AC: 14AN: 151924Hom.: 0 Cov.: 31
GnomAD3 exomes AF: 0.0000639 AC: 16AN: 250420Hom.: 0 AF XY: 0.0000443 AC XY: 6AN XY: 135406
GnomAD4 exome AF: 0.0000598 AC: 83AN: 1387838Hom.: 0 Cov.: 21 AF XY: 0.0000561 AC XY: 39AN XY: 695030
GnomAD4 genome AF: 0.0000922 AC: 14AN: 151924Hom.: 0 Cov.: 31 AF XY: 0.000108 AC XY: 8AN XY: 74174
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.858C>G (p.C286W) alteration is located in exon 4 (coding exon 2) of the C2orf42 gene. This alteration results from a C to G substitution at nucleotide position 858, causing the cysteine (C) at amino acid position 286 to be replaced by a tryptophan (W). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at