NM_001004127.3:c.1183A>G
Variant summary
Our verdict is Likely pathogenic. Variant got 6 ACMG points: 6P and 0B. PM2PM5PP3_Moderate
The NM_001004127.3(ALG11):c.1183A>G(p.Met395Val) variant causes a missense change involving the alteration of a conserved nucleotide. The variant was absent in control chromosomes in GnomAD project. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★). Another variant affecting the same amino acid position, but resulting in a different missense (i.e. M395T) has been classified as Likely pathogenic.
Frequency
Consequence
NM_001004127.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_pathogenic. Variant got 6 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
ALG11 | NM_001004127.3 | c.1183A>G | p.Met395Val | missense_variant | Exon 3 of 4 | ENST00000521508.2 | NP_001004127.2 | |
UTP14C | NM_021645.6 | c.-511A>G | 5_prime_UTR_variant | Exon 1 of 2 | ENST00000521776.2 | NP_067677.4 | ||
ALG11 | NR_036571.3 | n.66-3406A>G | intron_variant | Intron 1 of 1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
ALG11 | ENST00000521508.2 | c.1183A>G | p.Met395Val | missense_variant | Exon 3 of 4 | 1 | NM_001004127.3 | ENSP00000430236.1 | ||
UTP14C | ENST00000521776 | c.-511A>G | 5_prime_UTR_variant | Exon 1 of 2 | 1 | NM_021645.6 | ENSP00000428619.1 |
Frequencies
GnomAD3 genomes Cov.: 32
GnomAD4 exome Cov.: 31
GnomAD4 genome Cov.: 32
ClinVar
Submissions by phenotype
not provided Uncertain:1
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at