rs6988917

Variant names:

• chr8-37177662-C-A
• rs6988917

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 0.116 in 152,210 control chromosomes in the GnomAD database, including 3,315 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 0.12 (3315 hom., cov: 33)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.360

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.77).
• BA1: GnomAd4 highest subpopulation (AFR) allele frequency at 95% confidence interval = 0.389 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: 0.115 AC: 17559 AN: 152092 Hom.: 3299 Cov.: 33

Gnomad AFR AF: 0.394

Gnomad AMI AF: 0.00

Gnomad AMR AF: 0.0464

Gnomad ASJ AF: 0.00806

Gnomad EAS AF: 0.00866

Gnomad SAS AF: 0.00662

Gnomad FIN AF: 0.00245

Gnomad MID AF: 0.0348

Gnomad NFE AF: 0.00332

Gnomad OTH AF: 0.0876

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

GnomAD4 genome AF: 0.116 AC: 17621 AN: 152210 Hom.: 3315 Cov.: 33 AF XY: 0.112 AC XY: 8303 AN XY: 74436

Gnomad4 AFR AF: 0.394

Gnomad4 AMR AF: 0.0463

Gnomad4 ASJ AF: 0.00806

Gnomad4 EAS AF: 0.00868

Gnomad4 SAS AF: 0.00600

Gnomad4 FIN AF: 0.00245

Gnomad4 NFE AF: 0.00334

Gnomad4 OTH AF: 0.0885

Alfa AF: 0.0732 Hom.: 274

Bravo AF: 0.130

Asia WGS AF: 0.0560 AC: 194 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.77
CADD	Benign	6.5
DANN	Benign	0.78

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs6988917; hg19: chr8-37035180;