rs35521

Variant names:

• chr5-107745777-G-A
• rs35521

Your query was ambiguous. Multiple possible variants found:

• chr5-107745777-G-A
• chr5-107745777-G-C
• chr5-107745777-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 0.212 in 152,014 control chromosomes in the GnomAD database, including 3,646 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 0.21 (3646 hom., cov: 32)
• Consequence: Unknown
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -1.55

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 (EAS) allele frequency at 95% confidence interval = 0.364 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: 0.212 AC: 32274 AN: 151894 Hom.: 3648 Cov.: 32

Gnomad AFR AF: 0.165

Gnomad AMI AF: 0.308

Gnomad AMR AF: 0.225

Gnomad ASJ AF: 0.258

Gnomad EAS AF: 0.378

Gnomad SAS AF: 0.196

Gnomad FIN AF: 0.192

Gnomad MID AF: 0.269

Gnomad NFE AF: 0.226

Gnomad OTH AF: 0.212

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

GnomAD4 genome AF: 0.212 AC: 32286 AN: 152014 Hom.: 3646 Cov.: 32 AF XY: 0.211 AC XY: 15703 AN XY: 74284

Gnomad4 AFR AF: 0.165

Gnomad4 AMR AF: 0.225

Gnomad4 ASJ AF: 0.258

Gnomad4 EAS AF: 0.378

Gnomad4 SAS AF: 0.196

Gnomad4 FIN AF: 0.192

Gnomad4 NFE AF: 0.226

Gnomad4 OTH AF: 0.211

Alfa AF: 0.225 Hom.: 7900

Bravo AF: 0.216

Asia WGS AF: 0.300 AC: 1044 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	0.058
DANN	Benign	0.35

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs35521; hg19: chr5-107081478;