rs6974500

Variant names:

• chr7-23704930-C-A
• rs6974500

Your query was ambiguous. Multiple possible variants found:

• chr7-23704930-C-A
• chr7-23704930-C-G

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 0.574 in 151,902 control chromosomes in the GnomAD database, including 26,149 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 0.57 (26149 hom., cov: 31)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.477

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.93).
• BA1: GnomAd4 highest subpopulation (SAS) allele frequency at 95% confidence interval = 0.676 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: 0.574 AC: 87173 AN: 151784 Hom.: 26164 Cov.: 31

Gnomad AFR AF: 0.383

Gnomad AMI AF: 0.779

Gnomad AMR AF: 0.643

Gnomad ASJ AF: 0.624

Gnomad EAS AF: 0.642

Gnomad SAS AF: 0.697

Gnomad FIN AF: 0.660

Gnomad MID AF: 0.585

Gnomad NFE AF: 0.643

Gnomad OTH AF: 0.581

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

GnomAD4 genome AF: 0.574 AC: 87173 AN: 151902 Hom.: 26149 Cov.: 31 AF XY: 0.577 AC XY: 42871 AN XY: 74242

Gnomad4 AFR AF: 0.382

Gnomad4 AMR AF: 0.642

Gnomad4 ASJ AF: 0.624

Gnomad4 EAS AF: 0.641

Gnomad4 SAS AF: 0.696

Gnomad4 FIN AF: 0.660

Gnomad4 NFE AF: 0.643

Gnomad4 OTH AF: 0.576

Alfa AF: 0.634 Hom.: 43859

Bravo AF: 0.560

Asia WGS AF: 0.651 AC: 2261 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.93
CADD	Benign	4.8
DANN	Benign	0.30

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs6974500; hg19: chr7-23744549;