DCP2

Chr 5

decapping mRNA 2

Also known as: NUDT20

NCBI Gene: 167227ENSG00000172795UniProt: Q8IU60

The protein encoded by this gene is a key component of an mRNA-decapping complex required for degradation of mRNAs, both in normal mRNA turnover, and in nonsense-mediated mRNA decay (NMD). It removes the 7-methyl guanine cap structure from mRNA, prior to its degradation from the 5' end. Alternatively spliced transcript variants encoding different isoforms have been noted for this gene.[provided by RefSeq, Jun 2011]

92
ClinVar variants
28
Pathogenic / LP
0.66
pLI score
0
Active trials
Clinical Summary— DCP2
⚡
Population Constraint (gnomAD)
Moderately constrained gene (pLI 0.66) — some intolerance to loss-of-function variants.
📋
ClinVar Variants
28 Pathogenic / Likely Pathogenic· 62 VUS of 92 total submissions

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

gnomAD
Moderate LoF intolerance
LoF Constraint?LOEUF (Loss-of-function Observed/Expected Upper bound Fraction) is the upper bound of the 90% CI for LoF OE — the preferred gnomAD v4 metric. Lower = more intolerant to LoF. LOEUF < 0.35 = highly constrained.
0.41LOEUF
pLI 0.664
Z-score 3.75
OE 0.20 (0.10–0.41)
Moderately constrained

More LoF-intolerant than ~75% of genes

Missense Constraint?Missense Z-score: standard deviations fewer missense variants observed vs. expected. Z > 3.09 (p < 0.001) = gene does not tolerate missense variation. OE missense < 0.6 is also considered constrained.
0.53Z-score
OE missense 0.90 (0.80–1.01)
202 obs / 224.4 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios?Shaded band = 90% confidence interval. Vertical tick = point estimate. Grey threshold line = gnomAD constraint cutoff for that variant class.
LoF OE?Ratio of observed to expected LoF variants. Upper CI bound (LOEUF) ≤ 0.35 = strong LoF constraint signal.0.20 (0.10–0.41)
0≤0.351.4
Missense OE?Ratio of observed to expected missense variants. OE ≤ 0.6 = fewer missense variants than expected by chance.0.90 (0.80–1.01)
0≤0.61.4
Synonymous OE?Control metric — synonymous variants are largely neutral and expected near OE = 1.0. Significant deviation may indicate annotation issues.1.24
0≤1.21.6
LoF obs/exp: 5 / 25.4Missense obs/exp: 202 / 224.4Syn Z: -1.65

ClinVar Variant Classifications

92 submitted variants in ClinVar

ClinVar

Classification Summary

Pathogenic28
VUS62
Likely Benign2
28
Pathogenic
62
VUS
2
Likely Benign

Curated Variants Distribution

Classified variants from ClinVar · 5 ACMG categories

ClassificationLoFMissense + InframeNon-codingSynonymousTotal
Pathogenic
0
0
28
0
28
Likely Pathogenic
0
0
0
0
0
VUS
1
53
8
0
62
Likely Benign
0
1
1
0
2
Benign
0
0
0
0
0
Total15437092

LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly

View in ClinVar →

Protein Context — Lollipop Plot

DCP2 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

OMIM — Genotype-Phenotype Relationships

1 OMIM entry

OMIM
DECAPPING mRNA 2; DCP2
MIM #609844 · *
Clinical Literature
Landmark / reviewRecent case evidence
Key Publications
Landmark & review papers · by relevance
PubMed
TOR-dependent post-transcriptional regulation of autophagy.
Hu G et al.·Autophagy
2015
Decapping enzyme 2 is a novel immune-related biomarker that predicts poor prognosis in glioma.
Mei Y et al.·Biotechnol Genet Eng Rev
2024
Arabidopsis DCP2, DCP1, and VARICOSE form a decapping complex required for postembryonic development.
Xu J et al.·Plant Cell
2006
Characterization of methylation profile in biofluid cell-free DNA and identification of differentially methylated genes for phenotypic representations in Parkinson's disease.
Zhu A et al.·Clin Neurol Neurosurg
2025
Identification of m(7)G regulator-mediated RNA methylation modification patterns and related immune microenvironment regulation characteristics in heart failure.
Ma C et al.·Clin Epigenetics
2023
Nudt3 is an mRNA decapping enzyme that modulates cell migration.
Grudzien-Nogalska E et al.·RNA
2016
Mutations in DCPS and EDC3 in autosomal recessive intellectual disability indicate a crucial role for mRNA decapping in neurodevelopment.
Ahmed I et al.·Hum Mol Genet
2015
Quality control of assembly-defective U1 snRNAs by decapping and 5'-to-3' exonucleolytic digestion.
Shukla S et al.·Proc Natl Acad Sci U S A
2014
Underexpression of miR-224 in methotrexate resistant human colon cancer cells.
Mencia N et al.·Biochem Pharmacol
2011
Analysis of m7G-related signatures in the tumor immune microenvironment and identification of clinical prognostic regulators in ovarian cancer.
Wang K et al.·Front Immunol
2025
Top 10 resultsSearch PubMed ↗
Recent Gene-Specific Literature
Gene in title · MEDLINE · newest first
Europe PMC
Top 5 resultsSearch Europe PMC ↗

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

ClinicalTrials.gov

No active trials found for this gene.

Search ClinicalTrials.gov →

External Resources

Links to major genomics databases and tools