rs419050
Variant summary
Our verdict is Uncertain significance. Variant got 3 ACMG points: 3P and 0B. PM2PP3
The NM_015512.5(DNAH1):c.10317C>G(p.Ile3439Met) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000174 in 1,608,562 control chromosomes in the GnomAD database, with no homozygous occurrence. 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. I3439V) has been classified as Uncertain significance.
Frequency
Consequence
NM_015512.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 3 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
DNAH1 | NM_015512.5 | c.10317C>G | p.Ile3439Met | missense_variant | 65/78 | ENST00000420323.7 | |
DNAH1 | XM_017006129.2 | c.10386C>G | p.Ile3462Met | missense_variant | 67/80 | ||
DNAH1 | XM_017006130.2 | c.10317C>G | p.Ile3439Met | missense_variant | 66/79 | ||
DNAH1 | XM_017006131.2 | c.10260C>G | p.Ile3420Met | missense_variant | 66/79 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
DNAH1 | ENST00000420323.7 | c.10317C>G | p.Ile3439Met | missense_variant | 65/78 | 1 | NM_015512.5 | P1 | |
DNAH1 | ENST00000486752.5 | n.10774C>G | non_coding_transcript_exon_variant | 64/77 | 2 | ||||
DNAH1 | ENST00000488988.5 | n.2103C>G | non_coding_transcript_exon_variant | 12/25 | 2 | ||||
DNAH1 | ENST00000490713.5 | c.1017C>G | p.Ile339Met | missense_variant, NMD_transcript_variant | 8/20 | 5 |
Frequencies
GnomAD3 genomes ? AF: 0.00000672 AC: 1AN: 148714Hom.: 0 Cov.: 30
GnomAD3 exomes AF: 0.0000121 AC: 3AN: 248252Hom.: 0 AF XY: 0.00 AC XY: 0AN XY: 134748
GnomAD4 exome AF: 0.0000185 AC: 27AN: 1459848Hom.: 0 Cov.: 40 AF XY: 0.0000165 AC XY: 12AN XY: 726122
GnomAD4 genome ? AF: 0.00000672 AC: 1AN: 148714Hom.: 0 Cov.: 30 AF XY: 0.0000138 AC XY: 1AN XY: 72266
ClinVar
Submissions by phenotype
Primary ciliary dyskinesia Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | UNC Molecular Genetics Laboratory, University of North Carolina at Chapel Hill | Jul 13, 2022 | - - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at