15-71826774-G-A
Variant summary
Our verdict is Uncertain significance. Variant got 1 ACMG points: 2P and 1B. PM2BP4
The NM_006901.4(MYO9A):c.7453C>T(p.Pro2485Ser) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.00000342 in 1,461,796 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_006901.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 1 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
MYO9A | NM_006901.4 | c.7453C>T | p.Pro2485Ser | missense_variant | 42/42 | ENST00000356056.10 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
MYO9A | ENST00000356056.10 | c.7453C>T | p.Pro2485Ser | missense_variant | 42/42 | 1 | NM_006901.4 | P2 | |
MYO9A | ENST00000561618.5 | c.4003C>T | p.Pro1335Ser | missense_variant | 19/19 | 1 | |||
MYO9A | ENST00000564571.5 | c.*258C>T | 3_prime_UTR_variant | 42/42 | 1 | A2 | |||
MYO9A | ENST00000568042.5 | c.1198C>T | p.Pro400Ser | missense_variant | 9/9 | 5 |
Frequencies
GnomAD3 genomes Cov.: 32
GnomAD4 exome AF: 0.00000342 AC: 5AN: 1461796Hom.: 0 Cov.: 31 AF XY: 0.00000413 AC XY: 3AN XY: 727204
GnomAD4 genome Cov.: 32
ClinVar
Submissions by phenotype
Inborn genetic diseases Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Feb 13, 2024 | The c.7453C>T (p.P2485S) alteration is located in exon 42 (coding exon 41) of the MYO9A gene. This alteration results from a C to T substitution at nucleotide position 7453, causing the proline (P) at amino acid position 2485 to be replaced by a serine (S). 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
Publications
No publications associated with this variant yet.