chr14-58346456-A-G
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2
The NM_002892.4(ARID4A):āc.1025A>Gā(p.Asn342Ser) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.0000869 in 1,610,574 control chromosomes in the GnomAD database, with no homozygous occurrence. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_002892.4 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 |
---|---|---|---|---|---|---|---|---|
ARID4A | NM_002892.4 | c.1025A>G | p.Asn342Ser | missense_variant | Exon 13 of 24 | ENST00000355431.8 | NP_002883.3 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0000987 AC: 15AN: 152032Hom.: 0 Cov.: 29
GnomAD3 exomes AF: 0.0000763 AC: 19AN: 249078Hom.: 0 AF XY: 0.0000594 AC XY: 8AN XY: 134780
GnomAD4 exome AF: 0.0000857 AC: 125AN: 1458542Hom.: 0 Cov.: 29 AF XY: 0.0000758 AC XY: 55AN XY: 725714
GnomAD4 genome AF: 0.0000987 AC: 15AN: 152032Hom.: 0 Cov.: 29 AF XY: 0.000121 AC XY: 9AN XY: 74250
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.1025A>G (p.N342S) alteration is located in exon 13 (coding exon 12) of the ARID4A gene. This alteration results from a A to G substitution at nucleotide position 1025, causing the asparagine (N) at amino acid position 342 to be replaced by a serine (S). 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