16-84165762-GTTTC-G
Variant summary
Our verdict is Benign. Variant got -16 ACMG points: 0P and 16B. BP6_Very_StrongBA1
The NM_178452.6(DNAAF1):c.864-17_864-14delCTTT variant causes a intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00709 in 1,611,678 control chromosomes in the GnomAD database, including 664 homozygotes. Variant has been reported in ClinVar as Likely benign (★★).
Frequency
Consequence
NM_178452.6 intron
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -16 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
DNAAF1 | NM_178452.6 | c.864-17_864-14delCTTT | intron_variant | Intron 6 of 11 | ENST00000378553.10 | NP_848547.4 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0372 AC: 5645AN: 151928Hom.: 319 Cov.: 31
GnomAD3 exomes AF: 0.00982 AC: 2465AN: 251072Hom.: 143 AF XY: 0.00714 AC XY: 970AN XY: 135774
GnomAD4 exome AF: 0.00395 AC: 5759AN: 1459632Hom.: 343 AF XY: 0.00341 AC XY: 2474AN XY: 726288
GnomAD4 genome AF: 0.0372 AC: 5660AN: 152046Hom.: 321 Cov.: 31 AF XY: 0.0368 AC XY: 2733AN XY: 74340
ClinVar
Submissions by phenotype
not specified Benign:2
864-17_864-14delCTTT in intron 6 of DNAAF1: This variant is not expected to have clinical significance because at is a deletion of 4 bases but does not diverge from the splice consensus sequence and is therefore unlikely to impact splicing. This variant has been reported in dbSNP without frequency information (rs141073 777). -
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Primary ciliary dyskinesia Benign:1
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at