7-156644611-A-T
Variant summary
Our verdict is Likely benign. Variant got -2 ACMG points: 2P and 4B. PM2BP4_Strong
The NM_030936.4(RNF32):c.128A>T(p.Gln43Leu) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000762 in 1,613,596 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 16/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_030936.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -2 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
RNF32 | NM_030936.4 | c.128A>T | p.Gln43Leu | missense_variant | 3/9 | ENST00000317955.10 | NP_112198.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
RNF32 | ENST00000317955.10 | c.128A>T | p.Gln43Leu | missense_variant | 3/9 | 1 | NM_030936.4 | ENSP00000315950 | P1 |
Frequencies
GnomAD3 genomes AF: 0.0000657 AC: 10AN: 152186Hom.: 0 Cov.: 33
GnomAD3 exomes AF: 0.000159 AC: 40AN: 250946Hom.: 0 AF XY: 0.000214 AC XY: 29AN XY: 135666
GnomAD4 exome AF: 0.0000773 AC: 113AN: 1461292Hom.: 0 Cov.: 31 AF XY: 0.000117 AC XY: 85AN XY: 726954
GnomAD4 genome AF: 0.0000657 AC: 10AN: 152304Hom.: 0 Cov.: 33 AF XY: 0.0000940 AC XY: 7AN XY: 74486
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Aug 08, 2023 | The c.128A>T (p.Q43L) alteration is located in exon 3 (coding exon 2) of the RNF32 gene. This alteration results from a A to T substitution at nucleotide position 128, causing the glutamine (Q) at amino acid position 43 to be replaced by a leucine (L). 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