rs1692120

Variant names:

• chr11-61650000-G-A
• rs1692120

Your query was ambiguous. Multiple possible variants found:

• chr11-61650000-G-A
• chr11-61650000-G-C

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 0.425 in 152,108 control chromosomes in the GnomAD database, including 14,424 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 0.43 (14424 hom., cov: 33)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.309

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.97).
• BA1: GnomAd4 highest subpopulation (NFE) allele frequency at 95% confidence interval = 0.46 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: 0.425 AC: 64662 AN: 151990 Hom.: 14398 Cov.: 33

Gnomad AFR AF: 0.444

Gnomad AMI AF: 0.461

Gnomad AMR AF: 0.338

Gnomad ASJ AF: 0.566

Gnomad EAS AF: 0.0566

Gnomad SAS AF: 0.264

Gnomad FIN AF: 0.435

Gnomad MID AF: 0.443

Gnomad NFE AF: 0.464

Gnomad OTH AF: 0.429

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

GnomAD4 genome AF: 0.425 AC: 64721 AN: 152108 Hom.: 14424 Cov.: 33 AF XY: 0.418 AC XY: 31111 AN XY: 74354

Gnomad4 AFR AF: 0.444

Gnomad4 AMR AF: 0.337

Gnomad4 ASJ AF: 0.566

Gnomad4 EAS AF: 0.0565

Gnomad4 SAS AF: 0.263

Gnomad4 FIN AF: 0.435

Gnomad4 NFE AF: 0.464

Gnomad4 OTH AF: 0.424

Alfa AF: 0.457 Hom.: 33946

Bravo AF: 0.422

Asia WGS AF: 0.178 AC: 623 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.97
CADD	Benign	0.11
DANN	Benign	0.58

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs1692120; hg19: chr11-61417472;