rs17153527

Variant names:

• chr7-106855364-T-C
• rs17153527

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 0.0959 in 152,214 control chromosomes in the GnomAD database, including 946 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 0.096 (946 hom., cov: 32)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.728

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.9).
• BA1: GnomAd4 highest subpopulation (SAS) allele frequency at 95% confidence interval = 0.216 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: 0.0960 AC: 14608 AN: 152096 Hom.: 950 Cov.: 32

Gnomad AFR AF: 0.0248

Gnomad AMI AF: 0.115

Gnomad AMR AF: 0.0731

Gnomad ASJ AF: 0.150

Gnomad EAS AF: 0.146

Gnomad SAS AF: 0.228

Gnomad FIN AF: 0.203

Gnomad MID AF: 0.158

Gnomad NFE AF: 0.111

Gnomad OTH AF: 0.106

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

GnomAD4 genome AF: 0.0959 AC: 14600 AN: 152214 Hom.: 946 Cov.: 32 AF XY: 0.102 AC XY: 7558 AN XY: 74400

Gnomad4 AFR AF: 0.0247

Gnomad4 AMR AF: 0.0729

Gnomad4 ASJ AF: 0.150

Gnomad4 EAS AF: 0.146

Gnomad4 SAS AF: 0.227

Gnomad4 FIN AF: 0.203

Gnomad4 NFE AF: 0.111

Gnomad4 OTH AF: 0.105

Alfa AF: 0.113 Hom.: 2248

Bravo AF: 0.0813

Asia WGS AF: 0.155 AC: 538 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.90
CADD	Benign	0.68
DANN	Benign	0.60

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs17153527; hg19: chr7-106495809;