ZNF25

Chr 10

zinc finger protein 25

Also known as: KOX19, Zfp9

NCBI Gene: 219749 ENSG00000175395 UniProt: P17030 OMIM: 194528

The protein is predicted to function as a DNA-binding transcription factor that regulates RNA polymerase II transcription in the nucleus. This gene is not highly constrained against loss-of-function variants and is not currently associated with any established Mendelian disease or inheritance pattern in clinical databases.

OMIM ResearchSummary from RefSeq, UniProt

Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Jul 2025]

OMIM ResearchGenerating clinical summary…

Active trials

Pubs (1 yr)

—

P/LP submissions

—

P/LP missense

0.91

LOEUF

Multiple*

Mechanism· predicted

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

gnomAD

Tolerant — LoF & missense variants common in population

LoF Constraint?

0.91LOEUF

pLI 0.000

Z-score 1.87

OE 0.53 (0.33–0.91)

Tolerant

Typical tolerance to LoF variation

Missense Constraint?

-0.15Z-score

OE missense 1.03 (0.92–1.15)

237 obs / 230.5 exp

Tolerant

Tolerant to missense variation

Observed / Expected Ratios?

LoF OE?0.53 (0.33–0.91)

0≤0.351.4

Missense OE?1.03 (0.92–1.15)

0≤0.61.4

Synonymous OE?0.97

0≤1.21.6

LoF obs/exp: 10 / 18.7Missense obs/exp: 237 / 230.5Syn Z: 0.22

Background carrier burden — how many people carry a rare variant somewhere in ZNF25?

gnomAD v4 · ~731k individuals · PASS only

Rare means allele frequency under

Rare missense

1 in 170

546 rare PASS variants

Rare truncating (LoF)

1 in 640

95 rare PASS variants

Rare synonymous (reference)

1 in 200

187 rare PASS variants

Rare missense and truncating variants are carried at similar rates in ZNF25; this gene does not show strong loss-of-function constraint by this measure. A background rate for each class, not the frequency of any particular variant; thin-coverage exons undercount.

By genetic ancestry · 9 gnomAD groups · rare = under 0.1% in that group

Group	People	Missense	Truncating
European (non-Finnish)	~556k	1 in 220	1 in 1,300
South Asian	~43k	1 in 91	1 in 400
Remaining (unassigned)	~30k	1 in 120	1 in 540
European (Finnish)	~27k	1 in 360	1 in 3,800
Admixed American	~22k	1 in 130	1 in 830
African / African American	~21k	1 in 140	1 in 1,400
East Asian	~20k	1 in 78	1 in 1,300
Ashkenazi Jewish	~13k	1 in 600	≈ 1 in 4,300
Middle Eastern	~2,884	1 in 100	≈ 1 in 580

Each group is summed over the variants that are rare in that group. Grey ≈ figures rest on fewer than five expected carriers — too few to distinguish groups. Differences mostly reflect how many people were sampled and how much variation each ancestry carries, not disease risk.

Exome coverage (gnomAD): All 5 coding exons well covered in gnomAD exomes and genomes.? see exons ↓