1-99686748-G-T
Variant summary
Our verdict is Uncertain significance. Variant got 2 ACMG points: 2P and 0B. PM2
The NM_017734.5(PALMD):c.324G>T(p.Lys108Asn) variant causes a missense change. The variant allele was found at a frequency of 0.00000124 in 1,607,286 control chromosomes in the GnomAD database, with no homozygous occurrence. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_017734.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 2 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
PALMD | NM_017734.5 | c.324G>T | p.Lys108Asn | missense_variant | Exon 4 of 8 | ENST00000263174.9 | NP_060204.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
PALMD | ENST00000263174.9 | c.324G>T | p.Lys108Asn | missense_variant | Exon 4 of 8 | 1 | NM_017734.5 | ENSP00000263174.4 | ||
PALMD | ENST00000605497.5 | c.324G>T | p.Lys108Asn | missense_variant | Exon 4 of 7 | 1 | ENSP00000473839.1 | |||
PALMD | ENST00000496843.1 | n.3483G>T | non_coding_transcript_exon_variant | Exon 1 of 5 | 1 |
Frequencies
GnomAD3 genomes AF: 0.00000657 AC: 1AN: 152100Hom.: 0 Cov.: 32
GnomAD4 exome AF: 6.87e-7 AC: 1AN: 1455186Hom.: 0 Cov.: 27 AF XY: 0.00 AC XY: 0AN XY: 724266
GnomAD4 genome AF: 0.00000657 AC: 1AN: 152100Hom.: 0 Cov.: 32 AF XY: 0.0000135 AC XY: 1AN XY: 74288
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.324G>T (p.K108N) alteration is located in exon 4 (coding exon 4) of the PALMD gene. This alteration results from a G to T substitution at nucleotide position 324, causing the lysine (K) at amino acid position 108 to be replaced by an asparagine (N). 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