rs12626362

Variant names:

• chr21-44983382-G-A
• rs12626362

Your query was ambiguous. Multiple possible variants found:

• chr21-44983382-G-A
• chr21-44983382-G-C
• chr21-44983382-G-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 0.047 in 25,154 control chromosomes in the GnomAD database, including 9 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 0.047 (9 hom., cov: 32)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: 0.308

ACMG classification

Verdict is Benign. Variant got -12 ACMG points.

• BP4: Computational evidence support a benign effect (BayesDel_noAF=-0.84).
• BA1: GnomAd4 highest subpopulation (NFE) allele frequency at 95% confidence interval = 0.0706 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: 0.0471 AC: 1184 AN: 25134 Hom.: 9 Cov.: 32

Gnomad AFR AF: 0.0299

Gnomad AMI AF: 0.00

Gnomad AMR AF: 0.0231

Gnomad ASJ AF: 0.0613

Gnomad EAS AF: 0.00

Gnomad SAS AF: 0.00987

Gnomad FIN AF: 0.0400

Gnomad MID AF: 0.0690

Gnomad NFE AF: 0.0747

Gnomad OTH AF: 0.0395

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

GnomAD4 genome AF: 0.0470 AC: 1183 AN: 25154 Hom.: 9 Cov.: 32 AF XY: 0.0431 AC XY: 546 AN XY: 12656

Gnomad4 AFR AF: 0.0297

Gnomad4 AMR AF: 0.0230

Gnomad4 ASJ AF: 0.0613

Gnomad4 EAS AF: 0.00

Gnomad4 SAS AF: 0.00985

Gnomad4 FIN AF: 0.0400

Gnomad4 NFE AF: 0.0747

Gnomad4 OTH AF: 0.0394

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
BayesDel_noAF	Benign	-0.84
CADD	Benign	5.0
DANN	Benign	0.65

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs12626362; hg19: chr21-46403297;