ZNF225

Summary

ZNF225 (zinc finger protein 225, HGNC:13018) is a protein-coding gene on chromosome 19q13.31, encoding Zinc finger protein 225 (Q9UK10). May be involved in transcriptional regulation.

Predicted to enable DNA binding activity and zinc ion binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus.

Source: NCBI Gene 7768 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 107 total
• MANE Select transcript: NM_013362

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:13018
Approved symbol	ZNF225
Name	zinc finger protein 225
Location	19q13.31
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000256294
Ensembl biotype	protein_coding
Entrez	7768

Gene structure

Transcript identifiers

Ensembl transcripts: 14 — 13 protein_coding, 1 retained_intron

ENST00000262894, ENST00000588926, ENST00000589155, ENST00000590612, ENST00000592360, ENST00000592780, ENST00000860840, ENST00000860841, ENST00000860842, ENST00000923722, ENST00000923723, ENST00000923724, ENST00000923725, ENST00000971393

RefSeq mRNA: 2 — MANE Select: NM_013362 NM_001321685, NM_013362

CCDS: CCDS46100

Canonical transcript exons

ENST00000262894 — 5 exons

Exon	Start	End
ENSE00002460569	44115760	44115842
ENSE00002472184	44118482	44118574
ENSE00002489652	44118188	44118314
ENSE00002808958	44130850	44134822
ENSE00002833479	44113399	44113569

Expression profiles

Bgee: expression breadth ubiquitous, 204 present calls, max score 81.13.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 3.4375 / max 158.9948, expressed in 1487 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
176249	3.3014	1487
176248	0.1360	5

Top tissues by expression

281 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.13	gold quality
calcaneal tendon	UBERON:0003701	79.29	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	78.74	gold quality
tendon	UBERON:0000043	78.50	gold quality
stromal cell of endometrium	CL:0002255	77.86	gold quality
tendon of biceps brachii	UBERON:0008188	77.36	silver quality
cortical plate	UBERON:0005343	76.13	gold quality
sperm	CL:0000019	75.56	gold quality
granulocyte	CL:0000094	73.72	gold quality
adrenal tissue	UBERON:0018303	73.69	gold quality
male germ cell	CL:0000015	73.49	gold quality
ventricular zone	UBERON:0003053	73.31	gold quality
right adrenal gland	UBERON:0001233	72.90	gold quality
ganglionic eminence	UBERON:0004023	72.79	gold quality
sural nerve	UBERON:0015488	72.77	gold quality
right adrenal gland cortex	UBERON:0035827	72.73	gold quality
corpus callosum	UBERON:0002336	72.48	gold quality
endometrium	UBERON:0001295	72.13	gold quality
left adrenal gland	UBERON:0001234	72.12	gold quality
adrenal gland	UBERON:0002369	72.01	gold quality
left adrenal gland cortex	UBERON:0035825	71.84	gold quality
adrenal cortex	UBERON:0001235	71.76	gold quality
colonic epithelium	UBERON:0000397	71.36	silver quality
left ovary	UBERON:0002119	71.23	gold quality
islet of Langerhans	UBERON:0000006	71.06	gold quality
monocyte	CL:0000576	71.00	gold quality
leukocyte	CL:0000738	70.96	gold quality
tonsil	UBERON:0002372	70.86	gold quality
medial globus pallidus	UBERON:0002477	70.84	silver quality
cerebellar cortex	UBERON:0002129	70.71	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	5.55

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

89 targeting ZNF225, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-8485	100.00	77.57	4731
HSA-MIR-5692B	100.00	71.32	2622
HSA-MIR-5692C	100.00	71.32	2622
HSA-MIR-3162-3P	100.00	65.37	363
HSA-MIR-3163	100.00	77.23	8605
HSA-MIR-548C-3P	99.99	74.01	7587
HSA-MIR-513B-5P	99.99	69.96	2150
HSA-MIR-4715-3P	99.98	66.03	670
HSA-MIR-3692-3P	99.98	70.27	2139
HSA-MIR-548AT-5P	99.96	70.83	2666
HSA-MIR-551B-5P	99.96	71.28	3493
HSA-MIR-552-5P	99.93	68.56	1583
HSA-MIR-6508-5P	99.92	70.67	2465
HSA-MIR-329-3P	99.91	66.56	1234
HSA-MIR-362-3P	99.91	66.38	1267
HSA-MIR-374A-5P	99.90	71.34	2923
HSA-MIR-374B-5P	99.90	69.98	2734
HSA-MIR-548D-3P	99.87	70.67	4362
HSA-MIR-8067	99.86	69.59	2260
HSA-MIR-548BB-3P	99.86	70.58	4354
HSA-MIR-548AC	99.84	70.77	4351
HSA-MIR-548H-3P	99.84	70.80	4349
HSA-MIR-548Z	99.84	70.80	4349
HSA-MIR-4645-3P	99.76	69.33	993
HSA-MIR-7856-5P	99.75	69.99	2901
HSA-MIR-4306	99.72	70.50	3630
HSA-MIR-4255	99.72	67.70	1541
HSA-MIR-466	99.67	70.85	2863
HSA-MIR-587	99.64	70.86	2611
HSA-MIR-567	99.63	68.57	1219

Cross-species orthologs

0 orthologs

Paralogs (176): ZNF195 (ENSG00000005801), ZNF112 (ENSG00000062370), ZNF275 (ENSG00000063587), ZNF37A (ENSG00000075407), ZNF510 (ENSG00000081386), ZNF506 (ENSG00000081665), ZNF268 (ENSG00000090612), MZF1 (ENSG00000099326), ZNF629 (ENSG00000102870), ZNF175 (ENSG00000105497), ZNF85 (ENSG00000105750), ZFP30 (ENSG00000120784), ZNF45 (ENSG00000124459), ZNF391 (ENSG00000124613), ZNF436 (ENSG00000125945), ZNF484 (ENSG00000127081), ZNF835 (ENSG00000127903), ZNF780B (ENSG00000128000), ZSCAN10 (ENSG00000130182), ZNF317 (ENSG00000130803), ZNF331 (ENSG00000130844), ZNF227 (ENSG00000131115), ZNF141 (ENSG00000131127), ZNF132 (ENSG00000131849), ZNF189 (ENSG00000136870), ZIM3 (ENSG00000141946), ZFP14 (ENSG00000142065), ZNF514 (ENSG00000144026), ZNF300 (ENSG00000145908), RBAK (ENSG00000146587), ZNF157 (ENSG00000147117), ZNF182 (ENSG00000147118), ZNF41 (ENSG00000147124), ZNF7 (ENSG00000147789), ZNF117 (ENSG00000152926), ZNF221 (ENSG00000159905), ZNF235 (ENSG00000159917), ZNF714 (ENSG00000160352), ZNF577 (ENSG00000161551), ZNF12 (ENSG00000164631)

Protein

Protein identifiers

Zinc finger protein 225 — Q9UK10 (reviewed: Q9UK10)

All UniProt accessions (4): Q9UK10, K7ENA2, K7ENC8, K7ERU6

UniProt curated annotations — full annotation on UniProt →

Function. May be involved in transcriptional regulation.

Subcellular location. Nucleus.

Similarity. Belongs to the krueppel C2H2-type zinc-finger protein family.

RefSeq proteins (2): NP_001308614, NP_037494* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001909	KRAB	Domain
IPR013087	Znf_C2H2_type	Domain
IPR036051	KRAB_dom_sf	Homologous_superfamily
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR050589	Ikaros_C2H2-ZF	Family

Pfam: PF00096, PF01352

UniProt features (25 total): zinc finger region 18, sequence variant 2, sequence conflict 2, chain 1, domain 1, cross-link 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9UK10-F1	70.60	0.08

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (1): 61

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 71 (showing top): DANG_BOUND_BY_MYC, BENPORATH_MYC_MAX_TARGETS, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, EPPERT_PROGENITOR, GOBP_NEGATIVE_REGULATION_OF_TRANSCRIPTION_BY_RNA_POLYMERASE_II, GOBP_NEGATIVE_REGULATION_OF_NUCLEOBASE_CONTAINING_COMPOUND_METABOLIC_PROCESS, ZWANG_DOWN_BY_2ND_EGF_PULSE, OISHI_CHOLANGIOMA_STEM_CELL_LIKE_UP, GOMF_DNA_BINDING_TRANSCRIPTION_REPRESSOR_ACTIVITY, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, ASH1L_TARGET_GENES, E2F5_TARGET_GENES, LHX9_TARGET_GENES, NKX2_2_TARGET_GENES, PAX7_TARGET_GENES

GO Biological Process (3): regulation of transcription by RNA polymerase II (GO:0006357), negative regulation of transcription by RNA polymerase II (GO:0000122), regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (6): DNA-binding transcription repressor activity, RNA polymerase II-specific (GO:0001227), zinc ion binding (GO:0008270), sequence-specific DNA binding (GO:0043565), DNA binding (GO:0003677), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (2): nucleus (GO:0005634), nucleoplasm (GO:0005654)

Reactome top-level categories

Rollup of top-1 pathways:

Category	Pathways
RNA Polymerase II Transcription	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
transcription by RNA polymerase II	2
regulation of DNA-templated transcription	1
regulation of transcription by RNA polymerase II	1
negative regulation of DNA-templated transcription	1
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
negative regulation of transcription by RNA polymerase II	1
RNA polymerase II transcription regulatory region sequence-specific DNA binding	1
DNA-binding transcription factor activity, RNA polymerase II-specific	1
DNA-binding transcription repressor activity	1
transition metal ion binding	1
DNA binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1
nuclear lumen	1
cellular anatomical structure	1

Protein interactions and networks

STRING

636 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF225	DDAH1	O94760	480
ZNF225	YJEFN3	A6XGL0	419
ZNF225	NOAZFP	Q9Y3S2	378
ZNF225	TMEM218	A2RU14	362
ZNF225	RRP36	Q96EU6	349
ZNF225	AFG2B	Q9BVQ7	321
ZNF225	TENM1	Q9UKZ4	318
ZNF225	MON2	Q7Z3U7	314
ZNF225	A0A096LNH4	A0A096LNH4	303
ZNF225	ACTL8	Q9H568	296
ZNF225	CARF	Q8N187	295
ZNF225	SYT15	Q9BQS2	292
ZNF225	IMMP1L	Q96LU5	289
ZNF225	CRYZL1	O95825	274
ZNF225	RASSF6	Q6ZTQ3	268

IntAct

8 interactions, top by confidence:

A	B	Type	Score
ZNF225	WFS1	psi-mi:“MI:0915”(physical association)	0.560
ZNF221	ZNF284	psi-mi:“MI:0914”(association)	0.530
ZNF221	CDK11B	psi-mi:“MI:0914”(association)	0.350
M		psi-mi:“MI:0914”(association)	0.350
IKZF4	OBSL1	psi-mi:“MI:0914”(association)	0.350

BioGRID (9): ZNF225 (Affinity Capture-MS), ZNF225 (Affinity Capture-MS), ZNF225 (Synthetic Lethality), ZNF225 (Affinity Capture-RNA), ZNF225 (Affinity Capture-MS), ZNF225 (Affinity Capture-MS), ZNF225 (Affinity Capture-MS), ZSCAN32 (Cross-Linking-MS (XL-MS)), ZNF225 (Cross-Linking-MS (XL-MS))

ESM2 similar proteins: A0JNB1, A1YF12, A1YG88, A2T759, A6QLU5, B2RUI1, D3ZVT0, O14709, O43296, O75123, P10072, P15621, P17020, P17097, P51814, P85977, Q08ER8, Q0VGE8, Q14590, Q32KN0, Q3KQV3, Q4V8A8, Q5CZA5, Q5RBX0, Q5RCD9, Q5VIY5, Q61116, Q61967, Q6GQR8, Q6P9A3, Q6ZMS4, Q7TSH9, Q7TSI0, Q7Z3I7, Q86UD4, Q86WZ6, Q8BFS8, Q8IZ26, Q8N9F8, Q8TAF7

Diamond homologs: A0A1W2PQL4, A0JNB1, A0JPL0, A6NK53, A6QLU5, A6QPT6, A7MBI1, A8MT65, A8MUV8, A8MWA4, B2RXC5, B4DU55, B4DX44, E9PYI1, O14628, O75346, P0CH99, P0CI00, P17014, P17030, P17032, P17098, P51786, P85977, Q02386, Q06730, Q06732, Q0VAW7, Q12901, Q13360, Q14586, Q14588, Q14590, Q16587, Q2M3X9, Q2VY69, Q32M78, Q3ZCX4, Q49AA0, Q4R6J4

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

107 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	87
Likely benign	9
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1106 predictions. Top by Δscore:

Variant	Effect	Δscore
19:44115747:T:TA	acceptor_gain	1.0000
19:44115748:G:A	acceptor_gain	1.0000
19:44118311:GTGG:G	donor_gain	1.0000
19:44115759:GGCA:G	acceptor_gain	0.9900
19:44118275:G:GT	donor_gain	0.9900
19:44118298:G:GT	donor_gain	0.9900
19:44118299:A:T	donor_gain	0.9900
19:44118477:CACA:C	acceptor_loss	0.9900
19:44118479:CA:C	acceptor_loss	0.9900
19:44118480:A:AG	acceptor_gain	0.9900
19:44118480:AG:A	acceptor_gain	0.9900
19:44118481:G:GA	acceptor_loss	0.9900
19:44118481:G:GG	acceptor_gain	0.9900
19:44118481:GG:G	acceptor_gain	0.9900
19:44118481:GGGC:G	acceptor_gain	0.9900
19:44118573:AGGTA:A	donor_loss	0.9900
19:44113603:G:GG	donor_gain	0.9800
19:44115738:T:A	acceptor_gain	0.9800
19:44115751:A:AG	acceptor_gain	0.9800
19:44115755:TCCA:T	acceptor_loss	0.9800
19:44115756:CCAG:C	acceptor_loss	0.9800
19:44115758:A:AC	acceptor_loss	0.9800
19:44115841:AGGT:A	donor_loss	0.9800
19:44115844:T:A	donor_loss	0.9800
19:44118182:CTGTA:C	acceptor_loss	0.9800
19:44118183:TGTAG:T	acceptor_loss	0.9800
19:44118184:GTAGG:G	acceptor_loss	0.9800
19:44118186:A:G	acceptor_loss	0.9800
19:44118187:G:GA	acceptor_loss	0.9800
19:44118312:TGGG:T	donor_loss	0.9800

AlphaMissense

4747 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:44132091:T:C	F493L	0.997
19:44132093:T:A	F493L	0.997
19:44132093:T:G	F493L	0.997
19:44132175:T:C	F521L	0.997
19:44132177:T:A	F521L	0.997
19:44132177:T:G	F521L	0.997
19:44132259:T:C	F549L	0.996
19:44132261:C:A	F549L	0.996
19:44132261:C:G	F549L	0.996
19:44132176:T:C	F521S	0.995
19:44132427:T:C	F605L	0.995
19:44132429:T:A	F605L	0.995
19:44132429:T:G	F605L	0.995
19:44131335:T:C	F241L	0.994
19:44131337:T:A	F241L	0.994
19:44131337:T:G	F241L	0.994
19:44132092:T:C	F493S	0.994
19:44132343:T:C	F577L	0.994
19:44132345:T:A	F577L	0.994
19:44132345:T:G	F577L	0.994
19:44132007:T:C	F465L	0.993
19:44132009:T:A	F465L	0.993
19:44132009:T:G	F465L	0.993
19:44132182:A:C	Q523P	0.993
19:44131503:T:C	F297L	0.992
19:44131505:C:A	F297L	0.992
19:44131505:C:G	F297L	0.992
19:44131419:T:C	F269L	0.991
19:44131421:C:A	F269L	0.991
19:44131421:C:G	F269L	0.991

dbSNP variants (sampled 300 via entrez): RS1000207677 (19:44116618 G>C), RS1000287461 (19:44132359 G>A), RS1000318100 (19:44115598 G>A), RS1000559090 (19:44121071 T>A), RS1000639168 (19:44113804 GTTCT>G), RS1000888250 (19:44130961 A>T), RS1000985172 (19:44124424 A>G), RS1001004950 (19:44126583 G>A), RS1001162650 (19:44119839 C>G), RS1001165484 (19:44126586 T>A), RS1001219519 (19:44126838 A>G), RS1001408945 (19:44119433 A>G), RS1001659069 (19:44130307 G>A), RS1001672476 (19:44132816 A>G), RS1001720128 (19:44119158 T>C)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
bisphenol F	affects cotreatment, decreases expression	1
TAK-243	increases sumoylation	1
methylmercuric chloride	decreases expression	1
triphenyl phosphate	affects expression	1
sodium arsenite	increases expression	1
ferrous chloride	decreases expression	1
di-n-butylphosphoric acid	affects expression	1
jinfukang	decreases expression	1
Resveratrol	increases expression, affects cotreatment	1
Air Pollutants	decreases expression, increases abundance	1
Amiodarone	increases expression	1
Coal	decreases expression, increases abundance	1
Dexamethasone	affects cotreatment, decreases expression	1
Ethyl Methanesulfonate	increases expression	1
Indomethacin	affects cotreatment, decreases expression	1
Methyl Methanesulfonate	increases expression	1
Plant Extracts	affects cotreatment, increases expression	1
Quercetin	increases expression	1
Smoke	increases abundance, decreases expression	1
Valproic Acid	increases expression	1
Vincristine	decreases expression	1
1-Methyl-3-isobutylxanthine	decreases expression, affects cotreatment	1
Aflatoxin B1	increases methylation	1
Cadmium Chloride	decreases expression	1
Copper Sulfate	increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.