ZNF696

Summary

ZNF696 (zinc finger protein 696, HGNC:25872) is a protein-coding gene on chromosome 8q24.3, encoding Zinc finger protein 696 (Q9H7X3). May be involved in transcriptional regulation.

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.

Source: NCBI Gene 79943 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 81 total
• MANE Select transcript: NM_030895

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:25872
Approved symbol	ZNF696
Name	zinc finger protein 696
Location	8q24.3
Locus type	gene with protein product
Status	Approved
Aliases	FLJ14129
Ensembl gene	ENSG00000185730
Ensembl biotype	protein_coding
Entrez	79943

Gene structure

Transcript identifiers

Ensembl transcripts: 15 — 15 protein_coding

ENST00000330143, ENST00000518432, ENST00000518575, ENST00000520333, ENST00000521537, ENST00000523891, ENST00000909971, ENST00000909972, ENST00000909973, ENST00000909974, ENST00000924642, ENST00000971662, ENST00000971663, ENST00000971664, ENST00000971665

RefSeq mRNA: 1 — MANE Select: NM_030895 NM_030895

CCDS: CCDS6399

Canonical transcript exons

ENST00000330143 — 3 exons

Exon	Start	End
ENSE00001321271	143295740	143299952
ENSE00001368892	143291417	143291767
ENSE00003636662	143292972	143293065

Expression profiles

Bgee: expression breadth ubiquitous, 221 present calls, max score 88.87.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 3.9352 / max 48.3036, expressed in 1464 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
91399	3.9084	1462
91397	0.0225	4
91398	0.0043	1

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
tendon of biceps brachii	UBERON:0008188	88.87	gold quality
endothelial cell	CL:0000115	86.52	gold quality
buccal mucosa cell	CL:0002336	84.68	gold quality
cortical plate	UBERON:0005343	81.64	gold quality
medial globus pallidus	UBERON:0002477	80.39	gold quality
vena cava	UBERON:0004087	80.26	silver quality
globus pallidus	UBERON:0001875	79.08	gold quality
apex of heart	UBERON:0002098	78.85	gold quality
ventricular zone	UBERON:0003053	78.54	gold quality
right frontal lobe	UBERON:0002810	78.35	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	78.14	gold quality
anterior cingulate cortex	UBERON:0009835	77.85	gold quality
ganglionic eminence	UBERON:0004023	77.75	gold quality
cingulate cortex	UBERON:0003027	77.74	gold quality
skeletal muscle tissue of biceps brachii	UBERON:0004502	76.80	gold quality
sural nerve	UBERON:0015488	76.80	gold quality
cerebellar vermis	UBERON:0004720	76.50	silver quality
Brodmann (1909) area 9	UBERON:0013540	76.38	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	76.22	gold quality
prefrontal cortex	UBERON:0000451	76.11	gold quality
cerebellar hemisphere	UBERON:0002245	75.90	gold quality
nucleus accumbens	UBERON:0001882	75.86	gold quality
neocortex	UBERON:0001950	75.84	gold quality
cerebellar cortex	UBERON:0002129	75.83	gold quality
right lobe of liver	UBERON:0001114	75.71	gold quality
amygdala	UBERON:0001876	75.70	gold quality
right hemisphere of cerebellum	UBERON:0014890	75.70	gold quality
granulocyte	CL:0000094	75.68	gold quality
metanephros cortex	UBERON:0010533	75.55	gold quality
body of tongue	UBERON:0011876	75.55	silver quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.44

Regulation

Is transcription factor: yes

JASPAR motifs

Motif	Name	Family
MA2524.1	ZNF696	More than 3 adjacent zinc fingers

JASPAR matrix evidence (PMIDs): PMID:39605530

miRNA regulators (miRDB)

61 targeting ZNF696, 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-5011-5P	100.00	83.46	5820
HSA-MIR-4425	100.00	67.59	1049
HSA-MIR-190A-3P	100.00	80.35	5520
HSA-MIR-4776-3P	100.00	68.73	1340
HSA-MIR-150-5P	99.99	66.69	1976
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-5696	99.98	72.36	4487
HSA-MIR-6778-3P	99.96	67.29	2693
HSA-MIR-590-3P	99.96	74.34	6478
HSA-MIR-302E	99.96	70.74	2669
HSA-MIR-493-5P	99.96	72.47	2382
HSA-MIR-1250-3P	99.96	70.04	4038
HSA-MIR-128-3P	99.95	71.17	2484
HSA-MIR-216A-3P	99.95	71.19	2505
HSA-MIR-9983-3P	99.94	71.48	3631
HSA-MIR-3143	99.93	71.96	3104
HSA-MIR-6508-5P	99.92	70.67	2465
HSA-MIR-3681-3P	99.88	70.46	2254
HSA-MIR-129-5P	99.88	70.26	3273
HSA-MIR-8067	99.86	69.59	2260
HSA-MIR-3934-3P	99.76	65.51	1351
HSA-MIR-6764-5P	99.75	67.89	2304
HSA-MIR-132-3P	99.73	70.56	1424
HSA-MIR-212-3P	99.73	70.65	1424
HSA-MIR-4802-3P	99.72	70.13	1273
HSA-MIR-5580-3P	99.70	69.41	2052
HSA-MIR-4729	99.69	72.18	4233
HSA-MIR-587	99.64	70.86	2611
HSA-MIR-1915-3P	99.58	66.79	1988
HSA-MIR-5004-3P	99.54	68.27	1371

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 696 — Q9H7X3 (reviewed: Q9H7X3)

All UniProt accessions (6): E5RFI7, E5RG39, E5RH76, E5RH99, E5RJV3, Q9H7X3

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 (1): NP_112157* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily

Pfam: PF00096

UniProt features (13 total): zinc finger region 9, chain 1, region of interest 1, compositionally biased region 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9H7X3-F1	76.25	0.58

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 38 (showing top): GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_DN, NIKOLSKY_BREAST_CANCER_8Q23_Q24_AMPLICON, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, chr8q24, BONOME_OVARIAN_CANCER_SURVIVAL_SUBOPTIMAL_DEBULKING, PRC2_SUZ12_UP.V1_DN, TGFB_UP.V1_DN, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, DACH1_TARGET_GENES, EBNA1BP2_TARGET_GENES, HOXB4_TARGET_GENES, SFMBT1_TARGET_GENES, SNIP1_TARGET_GENES, UBN1_TARGET_GENES, ZNF22_TARGET_GENES

GO Biological Process (1): regulation of transcription by RNA polymerase II (GO:0006357)

GO Molecular Function (6): RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), zinc ion binding (GO:0008270), DNA binding (GO:0003677), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (1): nucleus (GO:0005634)

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
regulation of DNA-templated transcription	1
transcription by RNA polymerase II	1
transcription cis-regulatory region binding	1
chromatin	1
RNA polymerase II transcription regulatory region sequence-specific DNA binding	1
DNA-binding transcription factor activity	1
regulation of transcription by RNA polymerase II	1
transition metal ion binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

548 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF696	KRABD3	A5PL33	535
ZNF696	CLEC2A	Q6UVW9	520
ZNF696	LYG2	Q86SG7	516
ZNF696	TMPRSS5	Q9H3S3	429
ZNF696	XKR9	Q5GH70	420
ZNF696	KCNJ12	Q14500	412
ZNF696	FAM171A2	A8MVW0	406
ZNF696	ADAMTSL2	Q86TH1	382
ZNF696	ABHD12B	Q7Z5M8	379
ZNF696	ZFYVE28	Q9HCC9	368
ZNF696	KLHDC10	Q6PID8	367
ZNF696	ADTRP	Q96IZ2	336
ZNF696	PPP1R16A	Q96I34	329
ZNF696	CES4A	Q5XG92	325
ZNF696	PYCR3	Q53H96	321

IntAct

156 interactions, top by confidence:

A	B	Type	Score
MDFI	ZNF696	psi-mi:“MI:0915”(physical association)	0.670
VWC2	ZNF696	psi-mi:“MI:0915”(physical association)	0.670
GPR156	PLD2	psi-mi:“MI:0914”(association)	0.640
VWCE	HSPA5	psi-mi:“MI:0914”(association)	0.640
KRTAP1-3	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
TRIM41	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
ZNF526	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
CYSRT1	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
ZNF696	PDE4DIP	psi-mi:“MI:0915”(physical association)	0.560
GOLGA6L9	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
DVL3	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
MTUS2	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
CCNDBP1	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP10-5	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
ZNF696	MID2	psi-mi:“MI:0915”(physical association)	0.560
CALCOCO2	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP4-12	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP5-9	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP9-2	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
CEP70	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP10-7	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
STX1A	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP10-8	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP1-1	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP12-3	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
CDC14B	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP17-1	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
TENM4	ZNF696	psi-mi:“MI:0915”(physical association)	0.560
KRTAP10-9	ZNF696	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (82): ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS), ZNF696 (Affinity Capture-MS)

ESM2 similar proteins: A3KN32, A6NM28, A8K8V0, E9PYI1, O75467, O95201, P10072, P10075, P10078, P10754, P28698, P30373, P52736, Q0VCC5, Q14929, Q16587, Q17QR7, Q29RZ4, Q3KNW1, Q3TDE8, Q3US17, Q58DK7, Q5RJR4, Q5T619, Q5TEC3, Q5U4E2, Q62396, Q68H95, Q6AW86, Q6PGE4, Q6ZMY9, Q7Z398, Q7Z7K2, Q8BI73, Q8BIF9, Q8BIQ3, Q8BKK5, Q8JZL0, Q8N393, Q8R0T2

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 96 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

Pathway	Partners	Fold	FDR
Molecules associated with elastic fibres	5	26.6×	2e-04
Keratinization	13	12.5×	6e-09

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	74
Likely benign	3
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

547 predictions. Top by Δscore:

Variant	Effect	Δscore
8:143292967:A:G	acceptor_gain	0.9800
8:143295739:GCT:G	acceptor_gain	0.9800
8:143292966:A:AG	acceptor_gain	0.9700
8:143293061:TGCAG:T	donor_loss	0.9700
8:143293063:CAGG:C	donor_loss	0.9700
8:143293064:AGGTG:A	donor_loss	0.9700
8:143293065:GG:G	donor_loss	0.9700
8:143293067:T:A	donor_loss	0.9700
8:143294110:GC:G	donor_gain	0.9700
8:143295738:A:AG	acceptor_gain	0.9700
8:143295739:G:GG	acceptor_gain	0.9700
8:143292969:CAG:C	acceptor_loss	0.9600
8:143292970:A:C	acceptor_loss	0.9600
8:143292971:G:T	acceptor_loss	0.9600
8:143292962:A:AG	acceptor_gain	0.9500
8:143292971:GA:G	acceptor_gain	0.9500
8:143291742:G:GT	donor_gain	0.9400
8:143292963:C:G	acceptor_gain	0.9400
8:143292968:GCA:G	acceptor_gain	0.9400
8:143292970:A:AG	acceptor_gain	0.9400
8:143292971:G:GG	acceptor_gain	0.9400
8:143292971:GAA:G	acceptor_gain	0.9400
8:143293028:TGCTA:T	donor_gain	0.9400
8:143293068:G:GT	donor_loss	0.9400
8:143295734:TTTCA:T	acceptor_loss	0.9400
8:143295737:CA:C	acceptor_loss	0.9400
8:143295739:G:GC	acceptor_loss	0.9400
8:143295739:GC:G	acceptor_gain	0.9300
8:143295739:GCTGT:G	acceptor_gain	0.9300
8:143292793:G:GT	donor_gain	0.9200

AlphaMissense

2441 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
8:143296159:T:C	F162L	0.999
8:143296161:C:A	F162L	0.999
8:143296161:C:G	F162L	0.999
8:143296243:T:C	F190L	0.999
8:143296245:C:A	F190L	0.999
8:143296245:C:G	F190L	0.999
8:143296579:T:C	F302L	0.999
8:143296581:C:A	F302L	0.999
8:143296581:C:G	F302L	0.999
8:143296495:T:C	F274L	0.998
8:143296497:C:A	F274L	0.998
8:143296497:C:G	F274L	0.998
8:143296747:T:C	F358L	0.998
8:143296749:C:A	F358L	0.998
8:143296749:C:G	F358L	0.998
8:143296270:C:A	H199N	0.997
8:143296327:T:C	F218L	0.997
8:143296329:C:A	F218L	0.997
8:143296329:C:G	F218L	0.997
8:143296663:T:C	F330L	0.997
8:143296665:C:A	F330L	0.997
8:143296665:C:G	F330L	0.997
8:143296159:T:A	F162I	0.996
8:143296243:T:A	F190I	0.996
8:143296270:C:G	H199D	0.996
8:143296272:C:A	H199Q	0.996
8:143296272:C:G	H199Q	0.996
8:143296579:T:A	F302I	0.996
8:143296690:C:A	H339N	0.996
8:143296524:C:A	H283Q	0.995

dbSNP variants (sampled 300 via entrez): RS1000917159 (8:143298970 G>A), RS1000984964 (8:143291530 G>A,C), RS1001119856 (8:143293678 C>A,T), RS1001291641 (8:143290912 C>A,G,T), RS1001299250 (8:143293440 G>A), RS1001892198 (8:143294675 G>A,T), RS1001923807 (8:143299934 G>A), RS1001925570 (8:143300177 G>A), RS1002013787 (8:143289502 G>A,C), RS1002330844 (8:143296573 C>A,G,T), RS1002418278 (8:143291314 C>T), RS1002578785 (8:143296202 G>A,C), RS1002615508 (8:143295637 A>G), RS1002685137 (8:143296808 C>T), RS1002759219 (8:143297399 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

1 associations (top):

Study	Trait	p-value
GCST90002392_524	Mean corpuscular volume	2.000000e-12

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

17 total (human), top 17 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	affects methylation, increases expression, increases methylation	2
triphenyl phosphate	affects expression	1
ferrous chloride	decreases expression	1
di-n-butylphosphoric acid	affects expression	1
2-methyl-2H-pyrazole-3-carboxylic acid (2-methyl-4-o-tolylazophenyl)amide	affects cotreatment, decreases expression	1
PCI 5002	affects cotreatment, increases expression	1
Temozolomide	increases expression	1
Arsenic	decreases methylation, increases expression	1
Diazinon	increases methylation	1
Estradiol	increases expression	1
Hydrogen Peroxide	affects expression	1
Smoke	decreases expression	1
Tetrachlorodibenzodioxin	affects cotreatment, decreases expression	1
Tobacco Smoke Pollution	increases expression	1
Urethane	decreases expression	1
Zinc	affects cotreatment, increases expression	1
Copper Sulfate	decreases expression	1

Clinical trials (associated diseases)

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