The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data


Variant: NM_177438.3(DICER1):c.2951A>G (p.Asn984Ser)

CA7331148

412193 (ClinVar)

Gene: DICER1
Condition: DICER1-related tumor predisposition
Inheritance Mode: Autosomal dominant inheritance
UUID: 161821e0-8cf8-4221-acc0-a45ad23ed186
Approved on: 2025-01-07
Published on: 2025-01-27

HGVS expressions

NM_177438.3:c.2951A>G
NM_177438.3(DICER1):c.2951A>G (p.Asn984Ser)
NC_000014.9:g.95106077T>C
CM000676.2:g.95106077T>C
NC_000014.8:g.95572414T>C
CM000676.1:g.95572414T>C
NC_000014.7:g.94642167T>C
NG_016311.1:g.56346A>G
ENST00000529720.2:c.2951A>G
ENST00000531162.7:c.2951A>G
ENST00000674628.2:c.2951A>G
ENST00000675540.2:c.2951A>G
ENST00000696733.1:c.2951A>G
ENST00000696734.1:c.2951A>G
ENST00000696736.1:c.2951A>G
ENST00000696737.1:c.2951A>G
ENST00000696738.1:n.839A>G
ENST00000696920.1:n.3214A>G
ENST00000696921.1:n.4057A>G
ENST00000696922.1:n.3360A>G
ENST00000696923.1:c.2951A>G
ENST00000696924.1:c.2951A>G
ENST00000696925.1:n.3360A>G
ENST00000343455.8:c.2951A>G
ENST00000393063.6:c.2951A>G
ENST00000526495.6:c.2951A>G
ENST00000532939.3:c.2951A>G
ENST00000556045.6:c.2951A>G
ENST00000675540.1:c.773A>G
ENST00000675995.1:c.*1267A>G
ENST00000343455.7:c.2951A>G
ENST00000393063.5:c.2951A>G
ENST00000526495.5:c.2951A>G
ENST00000527414.5:c.2951A>G
ENST00000541352.5:c.2951A>G
ENST00000554367.1:n.160A>G
ENST00000556045.5:c.-279A>G
NM_001195573.1:c.2951A>G
NM_001271282.2:c.2951A>G
NM_001291628.1:c.2951A>G
NM_030621.4:c.2951A>G
NM_177438.2:c.2951A>G
NM_001271282.3:c.2951A>G
NM_001291628.2:c.2951A>G
NM_001395677.1:c.2951A>G
NM_001395678.1:c.2951A>G
NM_001395679.1:c.2951A>G
NM_001395680.1:c.2951A>G
NM_001395682.1:c.2951A>G
NM_001395683.1:c.2951A>G
NM_001395684.1:c.2951A>G
NM_001395685.1:c.2951A>G
NM_001395686.1:c.2669A>G
NM_001395687.1:c.2546A>G
NM_001395688.1:c.2546A>G
NM_001395689.1:c.2546A>G
NM_001395690.1:c.2546A>G
NM_001395691.1:c.2384A>G
NM_001395692.1:c.2951A>G
NM_001395693.1:c.2951A>G
NM_001395694.1:c.2951A>G
NM_001395695.1:c.2951A>G
NM_001395696.1:c.2546A>G
NM_001395697.1:c.1268A>G
NR_172715.1:n.3369A>G
NR_172716.1:n.3296A>G
NR_172717.1:n.3463A>G
NR_172718.1:n.3463A>G
NR_172719.1:n.3296A>G
NR_172720.1:n.3296A>G
More

Likely Benign

Met criteria codes 2
BS2 BP4
Not Met criteria codes 6
BA1 PM1 PM5 PM2 BS1 PS4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen DICER1 and miRNA-Processing Gene Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines for DICER1 Version 1.3.0

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
DICER1 and miRNA-Processing Gene VCEP
The NM_177438.3:c.2951A>G variant in DICER1 is a missense variant predicted to cause substitution of asparagine by serine at amino acid 984 (p.Asn984Ser). Although this variant has been observed in germline cases, to our knowledge, this variant has not been reported in individuals with DICER1-related tumor predisposition (PS4 not met; Internal lab contributors). This variant has been seen in 40 or more unrelated females without tumors through age 50 in at least one testing laboratory (BS2; Internal lab contributors). The total allele frequency in gnomAD v4.1.0 is 0.00002603 (42/1613822 alleles) with a highest population minor allele frequency of 0.0001068 (8/74908 alleles) in the African/African American population (PM2_Supporting, BS1, and BA1 are not met). Two different missense variants, c.2950A>C (p.Asn984His) and c.2952C>A (p.Asn984Lys), in the same codon have been reported (ClinVar Variation ID: 2716149, 1015034). However, these variants have not yet met the criteria to be classified as pathogenic by the ClinGen DICER VCEP (PM5 not met). In silico tools predict no damaging impact of the variant on protein function (REVEL: 0.136; MaxEntScan and SpliceAI: no effect on splicing) (BP4). In summary, this variant meets the criteria to be classified as likely benign for DICER1-related tumor predisposition based on the ACMG/AMP criteria applied, as specified by the ClinGen DICER1 VCEP: BS2, BP4. (Bayesian Points: -5; VCEP specifications version 1.3.0; 01/07/2025).
Met criteria codes
BS2
This variant has been seen in 40 or more unrelated females without tumors through age 50 in at least one testing laboratory (BS2; Internal lab contributors).
BP4
In silico tools predict no damaging impact of the variant on protein function (REVEL: 0.136; MaxEntScan and SpliceAI: no effect on splicing) (BP4).
Not Met criteria codes
BA1
The total allele frequency in gnomAD v4.1.0 is 0.00002603 (42/1613822 alleles) with a highest population minor allele frequency of 0.0001068 (8/74908 alleles) in the African/African American population (PM2_Supporting, BS1, and BA1 are not met).
PM1
This variant does not reside within a region of the RNAse IIIb domain that is defined as a mutational hotspot or critical functional domain by the ClinGen DICER1 VCEP (PM1 not met).
PM5
Two different missense variants, c.2950A>C (p.Asn984His) and c.2952C>A (p.Asn984Lys), in the same codon have been reported (ClinVar Variation ID: 2716149, 1015034). However, these variants have not yet met the criteria to be classified as pathogenic by the ClinGen DICER VCEP (PM5 not met).
PM2
The total allele frequency in gnomAD v4.1.0 is 0.00002603 (42/1613822 alleles) with a highest population minor allele frequency of 0.0001068 (8/74908 alleles) in the African/African American population (PM2_Supporting, BS1, and BA1 are not met).
BS1
The total allele frequency in gnomAD v4.1.0 is 0.00002603 (42/1613822 alleles) with a highest population minor allele frequency of 0.0001068 (8/74908 alleles) in the African/African American population (PM2_Supporting, BS1, and BA1 are not met).
PS4
Although this variant has been observed in germline cases, to our knowledge, this variant has not been reported in individuals with DICER1-related tumor predisposition (PS4 not met; Internal lab contributors).
Curation History
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