10-92479610-AGTGTGTGTGTGT-AGTGTGTGTGTGTGTGTGTGT

Variant names:

• chr10-92479610-A-AGTGTGTGT
• rs3831274
• NM_004969.4:c.1740-197_1740-190dupACACACAC

Variant summary

Our verdict is Uncertain significance. The variant received 0 ACMG points: 0P and 0B.

The NM_004969.4(IDE):​c.1740-197_1740-190dupACACACAC variant causes a intron change involving the alteration of a non-conserved nucleotide. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.

• Frequency:
  • Genomes: not found (cov: 0)
  • Exomes 𝑓: 0.0 (0 hom.)
  • Failed GnomAD Quality Control
• Consequence: IDE NM_004969.4 intron
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: -0.809
• Publications: 1 publications found

Genes affected

IDE (HGNC:5381): (insulin degrading enzyme) This gene encodes a zinc metallopeptidase that degrades intracellular insulin, and thereby terminates insulins activity, as well as participating in intercellular peptide signalling by degrading diverse peptides such as glucagon, amylin, bradykinin, and kallidin. The preferential affinity of this enzyme for insulin results in insulin-mediated inhibition of the degradation of other peptides such as beta-amyloid. Deficiencies in this protein's function are associated with Alzheimer's disease and type 2 diabetes mellitus but mutations in this gene have not been shown to be causitive for these diseases. This protein localizes primarily to the cytoplasm but in some cell types localizes to the extracellular space, cell membrane, peroxisome, and mitochondrion. Alternative splicing results in multiple transcript variants encoding distinct isoforms. Additional transcript variants have been described but have not been experimentally verified.[provided by RefSeq, Sep 2009]

ACMG classification

Our verdict: Uncertain_significance. The variant received 0 ACMG points.

Transcripts

RefSeq

Gene	Transcript	HGVSc	HGVSp	Effect	Exon rank	MANE	Protein	UniProt
IDE	NM_004969.4	c.1740-197_1740-190dupACACACAC		intron_variant	Intron 14 of 24	ENST00000265986.11	NP_004960.2

Ensembl

Gene	Transcript	HGVSc	HGVSp	Effect	Exon rank	TSL	MANE	Protein	Appris	UniProt
IDE	ENST00000265986.11	c.1740-197_1740-190dupACACACAC		intron_variant	Intron 14 of 24	1	NM_004969.4	ENSP00000265986.6

Frequencies

GnomAD3 genomes Cov.: 0

GnomAD4 exome Data not reliable, filtered out with message: AC0 AF: 0.00 AC: 0 AN: 320100 Hom.: 0 Cov.: 0 AF XY: 0.00 AC XY: 0 AN XY: 167342

African (AFR) AF: 0.00 AC: 0 AN: 9968

American (AMR) AF: 0.00 AC: 0 AN: 14358

Ashkenazi Jewish (ASJ) AF: 0.00 AC: 0 AN: 10208

East Asian (EAS) AF: 0.00 AC: 0 AN: 22536

South Asian (SAS) AF: 0.00 AC: 0 AN: 26638

European-Finnish (FIN) AF: 0.00 AC: 0 AN: 21742

Middle Eastern (MID) AF: 0.00 AC: 0 AN: 1418

European-Non Finnish (NFE) AF: 0.00 AC: 0 AN: 194106

Other (OTH) AF: 0.00 AC: 0 AN: 19126

GnomAD4 genome Cov.: 0

Alfa AF: 0.00 Hom.: 211

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name	Calibrated prediction	Score	Prediction
PhyloP100		-0.81

Splicing

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

Other links and lift over

dbSNP: rs3831274; hg19: chr10-94239367;