rs11190134

Variant names:

• chr10-99522443-G-A
• rs11190134

Your query was ambiguous. Multiple possible variants found:

• chr10-99522443-G-A
• chr10-99522443-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 0.361 in 152,086 control chromosomes in the GnomAD database, including 10,609 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 0.36 (10609 hom., cov: 33)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.0900

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.86).
• BA1: GnomAd4 highest subpopulation (EAS) allele frequency at 95% confidence interval = 0.514 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: 0.361 AC: 54894 AN: 151966 Hom.: 10595 Cov.: 33

Gnomad AFR AF: 0.243

Gnomad AMI AF: 0.289

Gnomad AMR AF: 0.442

Gnomad ASJ AF: 0.303

Gnomad EAS AF: 0.531

Gnomad SAS AF: 0.377

Gnomad FIN AF: 0.457

Gnomad MID AF: 0.301

Gnomad NFE AF: 0.391

Gnomad OTH AF: 0.350

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

GnomAD4 genome AF: 0.361 AC: 54946 AN: 152086 Hom.: 10609 Cov.: 33 AF XY: 0.369 AC XY: 27444 AN XY: 74340

Gnomad4 AFR AF: 0.243

Gnomad4 AMR AF: 0.443

Gnomad4 ASJ AF: 0.303

Gnomad4 EAS AF: 0.531

Gnomad4 SAS AF: 0.377

Gnomad4 FIN AF: 0.457

Gnomad4 NFE AF: 0.391

Gnomad4 OTH AF: 0.348

Alfa AF: 0.381 Hom.: 10589

Bravo AF: 0.356

Asia WGS AF: 0.432 AC: 1502 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.86
CADD	Benign	2.4
DANN	Benign	0.59

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs11190134; hg19: chr10-101282200;