rs11605518

Variant names:

• chr11-13248667-A-G
• rs11605518

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 0.712 in 152,112 control chromosomes in the GnomAD database, including 38,683 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 0.71 (38683 hom., cov: 32)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -3.52

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-1.04).
• BA1: GnomAd4 highest subpopulation (AFR) allele frequency at 95% confidence interval = 0.731 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: 0.712 AC: 108164 AN: 151994 Hom.: 38632 Cov.: 32

Gnomad AFR AF: 0.737

Gnomad AMI AF: 0.606

Gnomad AMR AF: 0.669

Gnomad ASJ AF: 0.714

Gnomad EAS AF: 0.497

Gnomad SAS AF: 0.653

Gnomad FIN AF: 0.740

Gnomad MID AF: 0.665

Gnomad NFE AF: 0.723

Gnomad OTH AF: 0.713

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

GnomAD4 genome AF: 0.712 AC: 108276 AN: 152112 Hom.: 38683 Cov.: 32 AF XY: 0.712 AC XY: 52902 AN XY: 74346

Gnomad4 AFR AF: 0.738

Gnomad4 AMR AF: 0.669

Gnomad4 ASJ AF: 0.714

Gnomad4 EAS AF: 0.497

Gnomad4 SAS AF: 0.656

Gnomad4 FIN AF: 0.740

Gnomad4 NFE AF: 0.723

Gnomad4 OTH AF: 0.717

Alfa AF: 0.720 Hom.: 15214

Bravo AF: 0.711

Asia WGS AF: 0.593 AC: 2055 AN: 3468

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-1.0
CADD	Benign	0.53
DANN	Benign	0.42

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs11605518; hg19: chr11-13270214;