19-44781050-C-G
Variant summary
Our verdict is Uncertain significance. Variant got 4 ACMG points: 4P and 0B. PM2PP3_Moderate
The NM_012116.4(CBLC):c.499C>G(p.Arg167Gly) variant causes a missense, splice region change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000292 in 1,611,206 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a pathogenic outcome for this variant. 3/3 splice prediction tools predict no significant impact on normal splicing. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_012116.4 missense, splice_region
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 4 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
CBLC | NM_012116.4 | c.499C>G | p.Arg167Gly | missense_variant, splice_region_variant | 2/11 | ENST00000647358.2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
CBLC | ENST00000647358.2 | c.499C>G | p.Arg167Gly | missense_variant, splice_region_variant | 2/11 | NM_012116.4 | P1 | ||
CBLC | ENST00000341505.4 | c.499C>G | p.Arg167Gly | missense_variant, splice_region_variant | 2/10 | 1 | |||
CBLC | ENST00000647063.1 | c.127C>G | p.Arg43Gly | missense_variant, splice_region_variant, NMD_transcript_variant | 1/6 |
Frequencies
GnomAD3 genomes ? AF: 0.0000329 AC: 5AN: 152170Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000161 AC: 4AN: 249044Hom.: 0 AF XY: 0.00 AC XY: 0AN XY: 134696
GnomAD4 exome AF: 0.0000288 AC: 42AN: 1459036Hom.: 0 Cov.: 32 AF XY: 0.0000303 AC XY: 22AN XY: 725724
GnomAD4 genome ? AF: 0.0000329 AC: 5AN: 152170Hom.: 0 Cov.: 32 AF XY: 0.0000269 AC XY: 2AN XY: 74340
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Jan 24, 2024 | The c.499C>G (p.R167G) alteration is located in exon 2 (coding exon 2) of the CBLC gene. This alteration results from a C to G substitution at nucleotide position 499, causing the arginine (R) at amino acid position 167 to be replaced by a glycine (G). 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