ZNF623

Chr 8

zinc finger protein 623

NCBI Gene: 9831ENSG00000183309UniProt: O75123

The ZNF623 protein is predicted to function as a DNA-binding transcription factor that regulates gene expression by RNA polymerase II in the nucleus. This gene has very low constraint against loss-of-function variants (pLI ~0, LOEUF 1.15), suggesting it tolerates protein-disrupting mutations well. No established human diseases have been definitively linked to ZNF623 mutations in the medical literature.

Summary from RefSeq, UniProt
Research Assistant →
0
Active trials
0
Pubs (1 yr)
61
P/LP submissions
0%
P/LP missense
1.15
LOEUF
Multiple*
Mechanism· predicted
Clinical Summary— ZNF623
⚡
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
📋
ClinVar Variants
60 unique Pathogenic / Likely Pathogenic· 54 VUS of 125 total submissions
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Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

gnomAD
Tolerant — LoF & missense variants common in population
LoF Constraint
1.15LOEUF
pLI 0.000
Z-score 1.14
OE 0.68 (0.42–1.15)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
0.85Z-score
OE missense 0.86 (0.78–0.95)
257 obs / 298.4 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.68 (0.42–1.15)
0≤0.351.4
Missense OE0.86 (0.78–0.95)
0≤0.61.4
Synonymous OE1.15
0≤1.21.6
LoF obs/exp: 10 / 14.7Missense obs/exp: 257 / 298.4Syn Z: -1.28
DN
0.91top 5%
GOF
0.81top 10%
LOF
0.2289th %ile

This gene has evidence for multiple mechanisms of pathogenicity (dominant-negative and gain-of-function). Both the Badonyi & Marsh prediction and the broader genomic evidence point to dominant-negative as the predominant mechanism. Different variants in this gene may act through different mechanisms — interpret in context of the specific variant.

DNprediction above median
GOFprediction above median

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

125 submitted variants in ClinVar

ClinVar

Classification Summary

Pathogenic55
Likely Pathogenic5
VUS54
Likely Benign4
55
Pathogenic
5
Likely Pathogenic
54
VUS
4
Likely Benign

Curated Variants Distribution

Classified variants from ClinVar · 5 ACMG categories

ClassificationLoFMissense + InframeNon-codingSynonymousTotal
Pathogenic
0
0
55
0
55
Likely Pathogenic
0
0
5
0
5
VUS
0
48
6
0
54
Likely Benign
0
4
0
0
4
Benign
0
0
0
0
0
Total052660118

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

View in ClinVar →

Protein Context — Lollipop Plot

ZNF623 · protein map & ClinVar variants

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

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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Full-Text Mentions
NLP-detected gene mentions in article bodies · via PubTator3
PubTator3
Top 5 full-text resultsSearch PubTator3 ↗
Key Publications
Landmark & review papers · by relevance
PubMed
Top 1 results · since 2015Search PubMed ↗
Recent Gene-Specific Literature
Gene in title · MEDLINE · newest first
Europe PMC

No open access results found

Top 5 resultsSearch Europe PMC ↗

External Resources

Links to major genomics databases and tools

Franklin by Genoox
AI-powered variant curation and clinical analysis
DECIPHER
Genomic variants and phenotypes in rare disease patients