rs9966951

Variant names:

• chr18-60108063-G-A
• rs9966951

Variant summary

Our verdict is Benign. Variant got -12 ACMG points: 0P and 12B. BP4_Strong BA1

The variant allele was found at a frequency of 0.341 in 151,854 control chromosomes in the GnomAD database, including 9,302 homozygotes. 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 0.34 (9302 hom., cov: 31)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.477

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.95).
• BA1: GnomAd4 highest subpopulation (AFR) allele frequency at 95% confidence interval = 0.428 is higher than 0.05.

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 AF: 0.341 AC: 51724 AN: 151736 Hom.: 9295 Cov.: 31

Gnomad AFR AF: 0.434

Gnomad AMI AF: 0.326

Gnomad AMR AF: 0.279

Gnomad ASJ AF: 0.255

Gnomad EAS AF: 0.179

Gnomad SAS AF: 0.378

Gnomad FIN AF: 0.265

Gnomad MID AF: 0.370

Gnomad NFE AF: 0.324

Gnomad OTH AF: 0.332

We have no GnomAD4 exomes data on this position. Probably position not covered by the project.

GnomAD4 genome AF: 0.341 AC: 51763 AN: 151854 Hom.: 9302 Cov.: 31 AF XY: 0.337 AC XY: 25001 AN XY: 74210

Gnomad4 AFR AF: 0.434

Gnomad4 AMR AF: 0.279

Gnomad4 ASJ AF: 0.255

Gnomad4 EAS AF: 0.180

Gnomad4 SAS AF: 0.379

Gnomad4 FIN AF: 0.265

Gnomad4 NFE AF: 0.324

Gnomad4 OTH AF: 0.331

Alfa AF: 0.321 Hom.: 16740

Bravo AF: 0.344

Asia WGS AF: 0.249 AC: 865 AN: 3476

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.95
CADD	Benign	0.45
DANN	Benign	0.68

Splicing

Find out detailed SpliceAI scores and Pangolin per-transcript scores at spliceailookup.broadinstitute.org

Publications

LitVar

Other links and lift over

dbSNP: rs9966951; hg19: chr18-57775295;