12-109397751-C-T
Variant summary
Our verdict is Uncertain significance. Variant got 4 ACMG points: 4P and 0B. PM2PP3_Moderate
The NM_001101421.4(MYO1H):c.509C>T(p.Thr170Met) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.000922 in 1,611,608 control chromosomes in the GnomAD database, including 1 homozygotes. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001101421.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 4 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
MYO1H | NM_001101421.4 | c.509C>T | p.Thr170Met | missense_variant | Exon 5 of 32 | ENST00000310903.10 | NP_001094891.4 | |
MYO1H | XM_011538223.3 | c.461C>T | p.Thr154Met | missense_variant | Exon 6 of 34 | XP_011536525.1 | ||
MYO1H | XM_047428738.1 | c.461C>T | p.Thr154Met | missense_variant | Exon 4 of 31 | XP_047284694.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
MYO1H | ENST00000310903.10 | c.509C>T | p.Thr170Met | missense_variant | Exon 5 of 32 | 5 | NM_001101421.4 | ENSP00000439182.2 |
Frequencies
GnomAD3 genomes AF: 0.000539 AC: 82AN: 152106Hom.: 1 Cov.: 31
GnomAD3 exomes AF: 0.000566 AC: 140AN: 247198Hom.: 0 AF XY: 0.000574 AC XY: 77AN XY: 134114
GnomAD4 exome AF: 0.000962 AC: 1404AN: 1459384Hom.: 0 Cov.: 29 AF XY: 0.000919 AC XY: 667AN XY: 725990
GnomAD4 genome AF: 0.000539 AC: 82AN: 152224Hom.: 1 Cov.: 31 AF XY: 0.000497 AC XY: 37AN XY: 74402
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.461C>T (p.T154M) alteration is located in exon 4 (coding exon 4) of the MYO1H gene. This alteration results from a C to T substitution at nucleotide position 461, causing the threonine (T) at amino acid position 154 to be replaced by a methionine (M). 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