rs7607369

Variant names:

• chr2-218414374-A-G
• rs7607369

Your query was ambiguous. Multiple possible variants found:

• chr2-218414374-A-G
• chr2-218414374-A-T

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 0.468 in 152,132 control chromosomes in the GnomAD database, including 19,409 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 0.47 (19409 hom., cov: 33)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.565

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.91).
• BA1: GnomAd4 highest subpopulation (EAS) allele frequency at 95% confidence interval = 0.723 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: 0.469 AC: 71269 AN: 152012 Hom.: 19406 Cov.: 33

Gnomad AFR AF: 0.173

Gnomad AMI AF: 0.511

Gnomad AMR AF: 0.553

Gnomad ASJ AF: 0.607

Gnomad EAS AF: 0.744

Gnomad SAS AF: 0.651

Gnomad FIN AF: 0.575

Gnomad MID AF: 0.618

Gnomad NFE AF: 0.570

Gnomad OTH AF: 0.522

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

GnomAD4 genome AF: 0.468 AC: 71269 AN: 152132 Hom.: 19409 Cov.: 33 AF XY: 0.476 AC XY: 35369 AN XY: 74366

Gnomad4 AFR AF: 0.172

Gnomad4 AMR AF: 0.554

Gnomad4 ASJ AF: 0.607

Gnomad4 EAS AF: 0.743

Gnomad4 SAS AF: 0.651

Gnomad4 FIN AF: 0.575

Gnomad4 NFE AF: 0.570

Gnomad4 OTH AF: 0.522

Alfa AF: 0.546 Hom.: 14882

Bravo AF: 0.451

Asia WGS AF: 0.663 AC: 2301 AN: 3478

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.91
CADD	Benign	4.1
DANN	Benign	0.32

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs7607369; hg19: chr2-219279097;