chr8-127513023-C-A

Position:

• chr8-127513023-C-A

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 0.812 in 152,146 control chromosomes in the GnomAD database, including 50,549 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 0.81 (50549 hom., cov: 32)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.778

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.94).
• BA1: GnomAd4 highest subpopulation (NFE) allele frequency at 95% confidence interval = 0.861 is higher than 0.05.

Transcripts

RefSeq

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	MANE	UniProt

Ensembl

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	TSL	MANE	Appris	UniProt

Frequencies

GnomAD3 genomes AF: 0.812 AC: 123466 AN: 152028 Hom.: 50526 Cov.: 32

Gnomad AFR AF: 0.706

Gnomad AMI AF: 0.904

Gnomad AMR AF: 0.840

Gnomad ASJ AF: 0.925

Gnomad EAS AF: 0.753

Gnomad SAS AF: 0.833

Gnomad FIN AF: 0.802

Gnomad MID AF: 0.921

Gnomad NFE AF: 0.867

Gnomad OTH AF: 0.852

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

GnomAD4 genome AF: 0.812 AC: 123531 AN: 152146 Hom.: 50549 Cov.: 32 AF XY: 0.811 AC XY: 60284 AN XY: 74364

Gnomad4 AFR AF: 0.706

Gnomad4 AMR AF: 0.839

Gnomad4 ASJ AF: 0.925

Gnomad4 EAS AF: 0.753

Gnomad4 SAS AF: 0.833

Gnomad4 FIN AF: 0.802

Gnomad4 NFE AF: 0.867

Gnomad4 OTH AF: 0.846

Alfa AF: 0.861 Hom.: 114598

Bravo AF: 0.807

Asia WGS AF: 0.735 AC: 2560 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.94
CADD	Benign	0.40
DANN	Benign	0.66

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs7017300; hg19: chr8-128525268;