chr4-83300988-G-C
Variant summary
Our verdict is Uncertain significance. Variant got 2 ACMG points: 2P and 0B. PM2
The NM_001098540.3(HPSE):c.1444C>G(p.Pro482Ala) variant causes a missense change. The variant allele was found at a frequency of 0.0000055 in 1,454,456 control chromosomes in the GnomAD database, with no homozygous occurrence. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001098540.3 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 |
---|---|---|---|---|---|---|---|---|
HPSE | NM_001098540.3 | c.1444C>G | p.Pro482Ala | missense_variant | Exon 11 of 12 | ENST00000311412.10 | NP_001092010.1 | |
HPSE | NM_006665.6 | c.1444C>G | p.Pro482Ala | missense_variant | Exon 12 of 13 | NP_006656.2 | ||
HPSE | NM_001199830.1 | c.1270C>G | p.Pro424Ala | missense_variant | Exon 10 of 11 | NP_001186759.1 | ||
HPSE | NM_001166498.3 | c.1222C>G | p.Pro408Ala | missense_variant | Exon 10 of 11 | NP_001159970.1 |
Ensembl
Frequencies
GnomAD3 genomes Cov.: 31
GnomAD4 exome AF: 0.00000550 AC: 8AN: 1454456Hom.: 0 Cov.: 28 AF XY: 0.00000691 AC XY: 5AN XY: 723812
GnomAD4 genome Cov.: 31
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.1444C>G (p.P482A) alteration is located in exon 12 (coding exon 11) of the HPSE gene. This alteration results from a C to G substitution at nucleotide position 1444, causing the proline (P) at amino acid position 482 to be replaced by an alanine (A). 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