chr16-30353471-C-G
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2
The NM_006110.3(CD2BP2):c.705G>C(p.Gln235His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000626 in 1,614,108 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 14/23 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_006110.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -4 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
CD2BP2 | NM_006110.3 | c.705G>C | p.Gln235His | missense_variant | Exon 5 of 7 | ENST00000305596.8 | NP_006101.1 | |
CD2BP2 | NM_001243646.2 | c.705G>C | p.Gln235His | missense_variant | Exon 4 of 6 | NP_001230575.1 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0000657 AC: 10AN: 152152Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000716 AC: 18AN: 251414Hom.: 0 AF XY: 0.0000736 AC XY: 10AN XY: 135900
GnomAD4 exome AF: 0.0000623 AC: 91AN: 1461838Hom.: 0 Cov.: 33 AF XY: 0.0000591 AC XY: 43AN XY: 727218
GnomAD4 genome AF: 0.0000657 AC: 10AN: 152270Hom.: 0 Cov.: 32 AF XY: 0.000107 AC XY: 8AN XY: 74446
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.705G>C (p.Q235H) alteration is located in exon 5 (coding exon 4) of the CD2BP2 gene. This alteration results from a G to C substitution at nucleotide position 705, causing the glutamine (Q) at amino acid position 235 to be replaced by a histidine (H). 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