NM_001122752.2:c.14G>T
Variant summary
Our verdict is Uncertain significance. Variant got 2 ACMG points: 2P and 0B. PM2
The NM_001122752.2(SERPINI1):c.14G>T(p.Gly5Val) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000657 in 152,130 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001122752.2 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 |
---|---|---|---|---|---|---|---|---|
SERPINI1 | NM_001122752.2 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 9 | ENST00000446050.7 | NP_001116224.1 | |
SERPINI1 | NM_005025.5 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 9 | NP_005016.1 | ||
SERPINI1 | XM_017006618.3 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 9 | XP_016862107.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
SERPINI1 | ENST00000446050.7 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 9 | 1 | NM_001122752.2 | ENSP00000397373.2 | ||
SERPINI1 | ENST00000295777.9 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 9 | 1 | ENSP00000295777.5 | |||
SERPINI1 | ENST00000472747.2 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 5 | 3 | ENSP00000420561.2 | |||
SERPINI1 | ENST00000472941.5 | c.14G>T | p.Gly5Val | missense_variant | Exon 2 of 3 | 3 | ENSP00000420133.1 |
Frequencies
GnomAD3 genomes AF: 0.00000657 AC: 1AN: 152130Hom.: 0 Cov.: 33
GnomAD4 exome Data not reliable, filtered out with message: AC0 AF: 0.00 AC: 0AN: 1461706Hom.: 0 Cov.: 31 AF XY: 0.00 AC XY: 0AN XY: 727152
GnomAD4 genome AF: 0.00000657 AC: 1AN: 152130Hom.: 0 Cov.: 33 AF XY: 0.0000135 AC XY: 1AN XY: 74302
ClinVar
Submissions by phenotype
Familial encephalopathy with neuroserpin inclusion bodies Uncertain:1
Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is not expected to disrupt SERPINI1 protein function. This variant has not been reported in the literature in individuals affected with SERPINI1-related conditions. This variant is not present in population databases (gnomAD no frequency). This sequence change replaces glycine, which is neutral and non-polar, with valine, which is neutral and non-polar, at codon 5 of the SERPINI1 protein (p.Gly5Val). Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may create or strengthen a splice site. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at