16-75305108-T-C
Variant summary
Our verdict is Uncertain significance. Variant got 4 ACMG points: 4P and 0B. PM2PP3_Moderate
The NM_006324.3(CFDP1):āc.725A>Gā(p.Glu242Gly) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.000197 in 1,614,066 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ). Synonymous variant affecting the same amino acid position (i.e. E242E) has been classified as Likely benign.
Frequency
Consequence
NM_006324.3 missense
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 |
---|---|---|---|---|---|---|---|
CFDP1 | NM_006324.3 | c.725A>G | p.Glu242Gly | missense_variant | 6/7 | ENST00000283882.4 | |
CFDP1 | XR_007064846.1 | downstream_gene_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
CFDP1 | ENST00000283882.4 | c.725A>G | p.Glu242Gly | missense_variant | 6/7 | 1 | NM_006324.3 | P1 | |
CFDP1 | ENST00000562602.1 | n.331A>G | non_coding_transcript_exon_variant | 1/3 | 3 | ||||
CFDP1 | ENST00000564793.1 | n.236A>G | non_coding_transcript_exon_variant | 2/3 | 3 | ||||
CFDP1 | ENST00000570103.5 | n.234A>G | non_coding_transcript_exon_variant | 2/3 | 2 |
Frequencies
GnomAD3 genomes AF: 0.000112 AC: 17AN: 152198Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000994 AC: 25AN: 251464Hom.: 0 AF XY: 0.000103 AC XY: 14AN XY: 135908
GnomAD4 exome AF: 0.000206 AC: 301AN: 1461868Hom.: 0 Cov.: 32 AF XY: 0.000208 AC XY: 151AN XY: 727232
GnomAD4 genome AF: 0.000112 AC: 17AN: 152198Hom.: 0 Cov.: 32 AF XY: 0.0000807 AC XY: 6AN XY: 74344
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Nov 14, 2023 | The c.725A>G (p.E242G) alteration is located in exon 6 (coding exon 6) of the CFDP1 gene. This alteration results from a A to G substitution at nucleotide position 725, causing the glutamic acid (E) at amino acid position 242 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