rs910320

Variant names:

• chr6-33107666-C-T
• rs910320

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 0.257 in 152,036 control chromosomes in the GnomAD database, including 5,543 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 0.26 (5543 hom., cov: 32)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: 0.128

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.89).
• BA1: GnomAd4 highest subpopulation (AFR) allele frequency at 95% confidence interval = 0.377 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: 0.257 AC: 39113 AN: 151918 Hom.: 5536 Cov.: 32

Gnomad AFR AF: 0.383

Gnomad AMI AF: 0.118

Gnomad AMR AF: 0.199

Gnomad ASJ AF: 0.0842

Gnomad EAS AF: 0.145

Gnomad SAS AF: 0.253

Gnomad FIN AF: 0.218

Gnomad MID AF: 0.101

Gnomad NFE AF: 0.222

Gnomad OTH AF: 0.233

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

GnomAD4 genome AF: 0.257 AC: 39137 AN: 152036 Hom.: 5543 Cov.: 32 AF XY: 0.253 AC XY: 18807 AN XY: 74290

Gnomad4 AFR AF: 0.382

Gnomad4 AMR AF: 0.199

Gnomad4 ASJ AF: 0.0842

Gnomad4 EAS AF: 0.144

Gnomad4 SAS AF: 0.252

Gnomad4 FIN AF: 0.218

Gnomad4 NFE AF: 0.222

Gnomad4 OTH AF: 0.233

Alfa AF: 0.242 Hom.: 931

Bravo AF: 0.257

Asia WGS AF: 0.255 AC: 887 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.89
CADD	Benign	5.3
DANN	Benign	0.51

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs910320; hg19: chr6-33075443;