ZNF784

Summary

ZNF784 (zinc finger protein 784, HGNC:33111) is a protein-coding gene on chromosome 19q13.42, encoding Zinc finger protein 784 (Q8NCA9). May be involved in transcriptional regulation.

Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Predicted to be active in nucleus.

Source: NCBI Gene 147808 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 66 total
• MANE Select transcript: NM_203374

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:33111
Approved symbol	ZNF784
Name	zinc finger protein 784
Location	19q13.42
Locus type	gene with protein product
Status	Approved
Aliases	MGC75238
Ensembl gene	ENSG00000179922
Ensembl biotype	protein_coding
Entrez	147808

Gene structure

Transcript identifiers

Ensembl transcripts: 2 — 2 protein_coding

ENST00000325351, ENST00000591479

RefSeq mRNA: 1 — MANE Select: NM_203374 NM_203374

CCDS: CCDS12930

Canonical transcript exons

ENST00000325351 — 2 exons

Exon	Start	End
ENSE00001247758	55624484	55624566
ENSE00001403292	55620741	55622644

Expression profiles

Bgee: expression breadth ubiquitous, 169 present calls, max score 90.44.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 3.5678 / max 59.4992, expressed in 1612 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
182852	3.5678	1612

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
hindlimb stylopod muscle	UBERON:0004252	90.44	gold quality
apex of heart	UBERON:0002098	87.80	gold quality
gastrocnemius	UBERON:0001388	87.57	gold quality
muscle of leg	UBERON:0001383	86.69	gold quality
right uterine tube	UBERON:0001302	83.17	gold quality
skeletal muscle tissue of biceps brachii	UBERON:0004502	82.58	gold quality
muscle layer of sigmoid colon	UBERON:0035805	81.48	gold quality
quadriceps femoris	UBERON:0001377	81.45	silver quality
heart left ventricle	UBERON:0002084	81.05	gold quality
vastus lateralis	UBERON:0001379	80.89	silver quality
tibial artery	UBERON:0007610	80.88	gold quality
popliteal artery	UBERON:0002250	80.87	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	80.62	gold quality
lower esophagus muscularis layer	UBERON:0035833	80.58	gold quality
lower esophagus	UBERON:0013473	80.55	gold quality
right atrium auricular region	UBERON:0006631	80.26	gold quality
skeletal muscle tissue	UBERON:0001134	80.23	gold quality
cardiac ventricle	UBERON:0002082	80.18	gold quality
biceps brachii	UBERON:0001507	79.93	gold quality
skeletal muscle tissue of rectus abdominis	UBERON:0004511	79.89	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	79.65	gold quality
muscle tissue	UBERON:0002385	79.61	gold quality
left ovary	UBERON:0002119	79.53	gold quality
cardiac atrium	UBERON:0002081	79.36	gold quality
aorta	UBERON:0000947	79.32	gold quality
right lobe of liver	UBERON:0001114	79.30	gold quality
right ovary	UBERON:0002118	79.29	gold quality
mucosa of transverse colon	UBERON:0004991	79.10	gold quality
small intestine Peyer’s patch	UBERON:0003454	78.86	gold quality
body of uterus	UBERON:0009853	78.84	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.83

Regulation

Is transcription factor: yes

JASPAR motifs

Motif	Name	Family
MA1717.1	ZNF784	Factors with multiple dispersed zinc fingers
MA1717.2	ZNF784	Factors with multiple dispersed zinc fingers

JASPAR matrix evidence (PMIDs): PMID:27852650

miRNA regulators (miRDB)

47 targeting ZNF784, 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-5193	100.00	67.26	1744
HSA-MIR-4500	99.99	72.72	2367
HSA-MIR-10401-5P	99.99	65.79	948
HSA-LET-7A-5P	99.98	72.29	1790
HSA-LET-7B-5P	99.98	72.31	1790
HSA-LET-7C-5P	99.98	72.29	1790
HSA-LET-7E-5P	99.98	72.29	1790
HSA-LET-7F-5P	99.98	72.56	1784
HSA-LET-7G-5P	99.98	72.37	1784
HSA-LET-7I-5P	99.98	72.37	1788
HSA-MIR-98-5P	99.98	72.33	1787
HSA-LET-7D-5P	99.96	71.76	1632
HSA-MIR-4458	99.96	71.64	1650
HSA-MIR-4447	99.85	67.81	2900
HSA-MIR-765	99.84	68.24	2442
HSA-MIR-6842-5P	99.80	67.54	1587
HSA-MIR-7110-5P	99.80	67.84	1712
HSA-MIR-34B-5P	99.78	67.56	1175
HSA-MIR-449C-5P	99.78	67.63	1168
HSA-MIR-11181-3P	99.75	66.38	2205
HSA-MIR-148A-3P	99.74	73.77	1700
HSA-MIR-148B-3P	99.74	73.75	1700
HSA-MIR-152-3P	99.74	73.75	1703
HSA-MIR-2682-5P	99.73	67.38	1055
HSA-MIR-1825	99.72	68.11	1089
HSA-MIR-3975	99.62	65.97	697
HSA-MIR-766-5P	99.47	67.91	2225
HSA-MIR-3182	99.40	68.15	2454
HSA-MIR-940	99.37	66.14	2064
HSA-MIR-6808-5P	99.31	66.23	2150

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp784	ENSMUSG00000043290
rattus_norvegicus	Zfp865	ENSRNOG00000016279

Paralogs (51): WIZ (ENSG00000011451), ZNF416 (ENSG00000083817), MYNN (ENSG00000085274), PRDM4 (ENSG00000110851), PRDM2 (ENSG00000116731), ZBTB17 (ENSG00000116809), ZNF644 (ENSG00000122482), GZF1 (ENSG00000125812), ZNF426 (ENSG00000130818), ZNF287 (ENSG00000141040), ZNF697 (ENSG00000143067), ZNF687 (ENSG00000143373), ZNF214 (ENSG00000149050), ZNF547 (ENSG00000152433), ZNF776 (ENSG00000152443), ZNF230 (ENSG00000159882), ZNF222 (ENSG00000159885), ZNF233 (ENSG00000159915), ZNF333 (ENSG00000160961), ZNF319 (ENSG00000166188), ZNF592 (ENSG00000166716), ZNF646 (ENSG00000167395), ZNF507 (ENSG00000168813), ZNF768 (ENSG00000169957), ZNF417 (ENSG00000173480), ZNF408 (ENSG00000175213), ZBTB41 (ENSG00000177888), ZNF223 (ENSG00000178386), ZNF852 (ENSG00000178917), ZNF572 (ENSG00000180938), ZNF707 (ENSG00000181135), ZNF746 (ENSG00000181220), ZNF467 (ENSG00000181444), ZNF530 (ENSG00000183647), ZNF17 (ENSG00000186272), ZNF527 (ENSG00000189164), ZKSCAN7 (ENSG00000196345), ZNF34 (ENSG00000196378), ZNF774 (ENSG00000196391), ZNF777 (ENSG00000196453)

Protein

Protein identifiers

Zinc finger protein 784 — Q8NCA9 (reviewed: Q8NCA9)

All UniProt accessions (2): Q8NCA9, K7EQ92

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_976308* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily

Pfam: PF00096

UniProt features (14 total): zinc finger region 6, compositionally biased region 3, region of interest 2, chain 1, modified residue 1, cross-link 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8NCA9-F1	65.05	0.06

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 (2): 13, 318

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 53 (showing top): TTGGGAG_MIR150, IVANOVA_HEMATOPOIESIS_STEM_CELL_LONG_TERM, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, DODD_NASOPHARYNGEAL_CARCINOMA_DN, GOBP_POSITIVE_REGULATION_OF_TRANSCRIPTION_BY_RNA_POLYMERASE_II, GOMF_DNA_BINDING_TRANSCRIPTION_ACTIVATOR_ACTIVITY, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, MIR4500, LET_7B_5P, LET_7A_5P_LET_7C_5P_LET_7E_5P, LET_7I_5P, LET_7F_5P, LET_7G_5P, MIR98_5P, MIR4458

GO Biological Process (3): hematopoietic progenitor cell differentiation (GO:0002244), regulation of transcription by RNA polymerase II (GO:0006357), positive regulation of transcription by RNA polymerase II (GO:0045944)

GO Molecular Function (7): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228), zinc ion binding (GO:0008270), sequence-specific double-stranded DNA binding (GO:1990837), DNA binding (GO:0003677), protein binding (GO:0005515), metal ion binding (GO:0046872)

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

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
transcription by RNA polymerase II	2
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
hemopoiesis	1
cell differentiation	1
regulation of DNA-templated transcription	1
regulation of transcription by RNA polymerase II	1
positive regulation of DNA-templated transcription	1
cis-regulatory region sequence-specific DNA binding	1
DNA-binding transcription factor activity, RNA polymerase II-specific	1
DNA-binding transcription activator activity	1
positive regulation of transcription by RNA polymerase II	1
transition metal ion binding	1
double-stranded DNA binding	1
sequence-specific DNA binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

400 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF784	HAUS7	Q99871	496
ZNF784	GPN3	Q9UHW5	452
ZNF784	UTS2B	Q765I0	417
ZNF784	KIF4B	Q2VIQ3	413
ZNF784	RNF115	Q9Y4L5	393
ZNF784	GPR171	O14626	348
ZNF784	RSRC2	Q7L4I2	348
ZNF784	PRKCSH	P14314	347
ZNF784	KLK12	Q9UKR0	328
ZNF784	PKIA	P04541	327
ZNF784	CAPN9	O14815	326
ZNF784	PHYHIPL	Q96FC7	321
ZNF784	ONECUT3	O60422	312
ZNF784	CCDC178	Q5BJE1	310
ZNF784	NUDT21	O43809	303

IntAct

33 interactions, top by confidence:

A	B	Type	Score
KANK2	ZNF784	psi-mi:“MI:0915”(physical association)	0.560
ZNF784	MDFI	psi-mi:“MI:0915”(physical association)	0.560
ZNF784	TRIM41	psi-mi:“MI:0915”(physical association)	0.560
ZNF784	MID2	psi-mi:“MI:0915”(physical association)	0.560
RIPPLY1	ZNF784	psi-mi:“MI:0915”(physical association)	0.560
TTC23L	ZNF784	psi-mi:“MI:0915”(physical association)	0.560
ZNF784	TRAF4	psi-mi:“MI:0915”(physical association)	0.560
RALBP1	AP2B1	psi-mi:“MI:0914”(association)	0.530
ZNF784	CSNK2B	psi-mi:“MI:0915”(physical association)	0.370
ZNF784	MAPK8IP2	psi-mi:“MI:0915”(physical association)	0.370
RFPL4B	KRBA1	psi-mi:“MI:0914”(association)	0.350
TEX19	ZNF316	psi-mi:“MI:0914”(association)	0.350
ZNF784	SETD1A	psi-mi:“MI:0914”(association)	0.350
ZNF784	IPO8	psi-mi:“MI:0914”(association)	0.350
LTO1	USP11	psi-mi:“MI:0914”(association)	0.350
MICB	LGALS8	psi-mi:“MI:0914”(association)	0.350
TLNRD1	STK25	psi-mi:“MI:0914”(association)	0.350
ZNF784	KANK2	psi-mi:“MI:0915”(physical association)	0.000
ZNF784	TRAF4	psi-mi:“MI:0915”(physical association)	0.000
ZNF784	MID2	psi-mi:“MI:0915”(physical association)	0.000
ZNF784	MDFI	psi-mi:“MI:0915”(physical association)	0.000
ZNF784	TRIM41	psi-mi:“MI:0915”(physical association)	0.000
ZNF784	TTC23L	psi-mi:“MI:0915”(physical association)	0.000
RIPPLY1	ZNF784	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (38): ZNF784 (Affinity Capture-MS), ZNF784 (Affinity Capture-MS), ZNF784 (Two-hybrid), ZNF784 (Two-hybrid), ZNF784 (Two-hybrid), ZNF784 (Two-hybrid), ZNF784 (Two-hybrid), KANK2 (Two-hybrid), TTC23L (Two-hybrid), CHD4 (Affinity Capture-MS), ZNF784 (Affinity Capture-MS), SETD1A (Affinity Capture-MS), GATAD2B (Affinity Capture-MS), BOD1L1 (Affinity Capture-MS), ZNF784 (Affinity Capture-MS)

ESM2 similar proteins: A0A2Z4LIS9, A2CE44, A6NFI3, E9PZZ1, O95201, P09066, P15863, P19622, P22091, P46099, P49640, P70338, P82976, P97503, P98168, P98169, Q05917, Q07120, Q13351, Q14549, Q14V87, Q15270, Q19A40, Q2QGD7, Q3SY56, Q3U133, Q58DK7, Q5DWN0, Q6IQX8, Q6NUN9, Q8C8V1, Q8NCA9, Q8TD94, Q8WUU4, Q924A2, Q92618, Q96RK0, Q99684, Q9BV97, Q9BYN7

Diamond homologs: A1XSY8, A2A884, A2ANX9, A7Y7X5, B0X9H6, E9PZZ1, E9Q6W4, G5EBU4, J9VX63, O60315, O62836, O75362, O77027, O77459, O95863, P03001, P08048, P08152, P10925, P11161, P13360, P15822, P17010, P17012, P20662, P25932, P26633, P28166, P31508, P31509, P31629, P36197, P39768, P51774, P52739, P60319, P80944, Q00453, Q00900, Q01611

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	59
Likely benign	3
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

221 predictions. Top by Δscore:

Variant	Effect	Δscore
19:55622641:GGACC:G	acceptor_loss	1.0000
19:55622643:ACCT:A	acceptor_loss	1.0000
19:55622644:CCT:C	acceptor_loss	1.0000
19:55622645:C:CG	acceptor_loss	1.0000
19:55622646:T:G	acceptor_loss	1.0000
19:55622650:C:CT	acceptor_gain	1.0000
19:55622651:A:T	acceptor_gain	1.0000
19:55624471:T:A	donor_gain	1.0000
19:55622640:AGGAC:A	acceptor_gain	0.9900
19:55622641:GGAC:G	acceptor_gain	0.9900
19:55622642:GAC:G	acceptor_gain	0.9900
19:55622643:AC:A	acceptor_gain	0.9900
19:55622644:CC:C	acceptor_gain	0.9900
19:55622645:C:CC	acceptor_gain	0.9900
19:55624463:AGGCC:A	donor_gain	0.9900
19:55624497:T:TA	donor_gain	0.9900
19:55622645:C:T	acceptor_gain	0.9800
19:55624479:CGCA:C	donor_loss	0.9800
19:55624480:GCAC:G	donor_loss	0.9800
19:55624482:A:AC	donor_gain	0.9800
19:55624482:A:AT	donor_loss	0.9800
19:55624483:C:CC	donor_gain	0.9800
19:55624483:C:CG	donor_loss	0.9800
19:55624467:C:A	donor_gain	0.9700
19:55624478:CCGCA:C	donor_loss	0.9700
19:55624438:T:TA	donor_gain	0.9600
19:55624434:G:GT	donor_gain	0.9500
19:55624471:T:TA	donor_loss	0.9500
19:55624476:G:A	donor_gain	0.9300
19:55624488:T:TA	donor_gain	0.9300

AlphaMissense

2076 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:55621940:G:C	F261L	1.000
19:55621940:G:T	F261L	1.000
19:55621942:A:G	F261L	1.000
19:55621963:A:G	C254R	1.000
19:55622024:G:C	F233L	1.000
19:55622024:G:T	F233L	1.000
19:55622025:A:G	F233S	1.000
19:55622026:A:G	F233L	1.000
19:55621913:G:C	H270Q	0.999
19:55621913:G:T	H270Q	0.999
19:55621915:G:C	H270D	0.999
19:55621915:G:T	H270N	0.999
19:55621923:A:G	F267S	0.999
19:55621925:G:C	N266K	0.999
19:55621925:G:T	N266K	0.999
19:55621941:A:G	F261S	0.999
19:55621942:A:T	F261I	0.999
19:55621953:C:G	C257S	0.999
19:55621953:C:T	C257Y	0.999
19:55621954:A:G	C257R	0.999
19:55621954:A:T	C257S	0.999
19:55621961:G:C	C254W	0.999
19:55621962:C:G	C254S	0.999
19:55621963:A:T	C254S	0.999
19:55621967:G:C	F252L	0.999
19:55621967:G:T	F252L	0.999
19:55621969:A:G	F252L	0.999
19:55621985:G:C	H246Q	0.999
19:55621985:G:T	H246Q	0.999
19:55621987:G:C	H246D	0.999

dbSNP variants (sampled 300 via entrez): RS1000123174 (19:55621866 C>G,T), RS1001025014 (19:55626531 C>T), RS1001886274 (19:55621198 T>C), RS1002000284 (19:55620415 C>G), RS1002053975 (19:55620608 C>G), RS1002550833 (19:55623991 C>T), RS1002583432 (19:55623735 A>G), RS1003557820 (19:55622431 C>T), RS1003676749 (19:55621579 T>C), RS1004103769 (19:55624394 C>A), RS1004347585 (19:55624221 C>G), RS1004537125 (19:55624107 C>A,T), RS1004909117 (19:55623996 T>A,C), RS1005138034 (19:55622542 C>T), RS1005293128 (19:55621092 G>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

29 total (human), top 29 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, decreases expression, affects expression	6
aristolochic acid I	decreases expression	1
FR900359	increases phosphorylation	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
bisphenol A	decreases expression	1
trichostatin A	decreases expression	1
2,4,5,2’,4’,5’-hexachlorobiphenyl	decreases expression	1
sodium arsenite	increases expression	1
3,4,5,3’,4’-pentachlorobiphenyl	decreases expression	1
perfluorooctanoic acid	decreases expression	1
ferrous chloride	decreases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression	1
clothianidin	increases expression	1
abrine	increases expression	1
2,2’,4,4’-tetrabromodiphenyl ether	decreases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
jinfukang	increases expression	1
Sunitinib	decreases expression	1
Benzo(a)pyrene	decreases methylation	1
Caffeine	decreases phosphorylation	1
Doxorubicin	decreases expression	1
Estradiol	decreases expression	1
Thiram	increases expression	1
Urethane	decreases expression	1
Cadmium Chloride	increases expression	1
Palmitic Acid	increases expression	1
Acrylamide	decreases expression	1
S-Nitrosoglutathione	increases expression	1

Clinical trials (associated diseases)

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