16-3889456-C-T
Variant names:
Variant summary
Our verdict is Likely benign. The variant received -4 ACMG points: 0P and 4B. BP4_Strong
In-silico tool predicts a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Genomes: 𝑓 0.0093 ( 0 hom., cov: 3)
Failed GnomAD Quality Control
Consequence
Unknown
Scores
2
Clinical Significance
Not reported in ClinVar
Conservation
PhyloP100: 0.167
Publications
1 publications found
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ACMG classification
Our verdict: Likely_benign. The variant received -4 ACMG points.
BP4
Computational evidence support a benign effect (BayesDel_noAF=-1.0).
Transcripts
RefSeq
| Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
|---|
Ensembl
| Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
|---|
Frequencies
GnomAD3 genomes 0.00934 AC: 85AN: 9102Hom.: 0 Cov.: 3 show subpopulations
GnomAD3 genomes
AF:
AC:
85
AN:
9102
Hom.:
Cov.:
3
Gnomad AFR
AF:
Gnomad AMI
AF:
Gnomad AMR
AF:
Gnomad ASJ
AF:
Gnomad EAS
AF:
Gnomad SAS
AF:
Gnomad FIN
AF:
Gnomad MID
AF:
Gnomad NFE
AF:
Gnomad OTH
AF:
We have no GnomAD4 exomes data on this position. Probably position not covered by the project.
GnomAD4 genome 0.00933 AC: 85AN: 9108Hom.: 0 Cov.: 3 AF XY: 0.00887 AC XY: 35AN XY: 3948 show subpopulations
GnomAD4 genome
Data not reliable, filtered out with message: AS_VQSR
AF:
AC:
85
AN:
9108
Hom.:
Cov.:
3
AF XY:
AC XY:
35
AN XY:
3948
show subpopulations
African (AFR)
AF:
AC:
9
AN:
1368
American (AMR)
AF:
AC:
14
AN:
728
Ashkenazi Jewish (ASJ)
AF:
AC:
6
AN:
304
East Asian (EAS)
AF:
AC:
6
AN:
402
South Asian (SAS)
AF:
AC:
0
AN:
124
European-Finnish (FIN)
AF:
AC:
2
AN:
468
Middle Eastern (MID)
AF:
AC:
0
AN:
18
European-Non Finnish (NFE)
AF:
AC:
46
AN:
5532
Other (OTH)
AF:
AC:
1
AN:
108
Allele Balance Distribution
Red line indicates average allele balance
Average allele balance: 0.401
Heterozygous variant carriers
0
4
8
12
16
20
0.00
0.20
0.40
0.60
0.80
0.95
Allele balance
Age Distribution
Genome Het
Variant carriers
0
2
4
6
8
10
<30
30-35
35-40
40-45
45-50
50-55
55-60
60-65
65-70
70-75
75-80
>80
Age
Alfa
AF:
Hom.:
ClinVar
Not reported inComputational scores
Source:
Name
Calibrated prediction
Score
Prediction
BayesDel_noAF
Benign
DANN
Benign
PhyloP100
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at
Publications
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