ZNF793

Summary

ZNF793 (zinc finger protein 793, HGNC:33115) is a protein-coding gene on chromosome 19q13.12, encoding Zinc finger protein 793 (Q6ZN11). May be involved in transcriptional regulation.

Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-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. Implicated in Barrett’s esophagus.

Source: NCBI Gene 390927 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 75 total
• MANE Select transcript: NM_001013659

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:33115
Approved symbol	ZNF793
Name	zinc finger protein 793
Location	19q13.12
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000188227
Ensembl biotype	protein_coding
Entrez	390927

Gene structure

Transcript identifiers

Ensembl transcripts: 19 — 18 protein_coding, 1 nonsense_mediated_decay

ENST00000445217, ENST00000586138, ENST00000586187, ENST00000587143, ENST00000587490, ENST00000587986, ENST00000588578, ENST00000589319, ENST00000627814, ENST00000888440, ENST00000888441, ENST00000888442, ENST00000888443, ENST00000922313, ENST00000922314, ENST00000922315, ENST00000957135, ENST00000957136, ENST00000957137

RefSeq mRNA: 1 — MANE Select: NM_001013659 NM_001013659

CCDS: CCDS46062

Canonical transcript exons

ENST00000627814 — 8 exons

Exon	Start	End
ENSE00001618391	37520184	37520312
ENSE00001644650	37508265	37508403
ENSE00001719773	37523410	37523454
ENSE00001775665	37522532	37522647
ENSE00003720778	37533308	37533403
ENSE00003738813	37532356	37532482
ENSE00003768474	37506939	37506966
ENSE00003769255	37536897	37543333

Expression profiles

Bgee: expression breadth ubiquitous, 245 present calls, max score 92.50.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 3.8988 / max 104.1038, expressed in 1024 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
175558	1.4155	666
175559	1.3518	659
175560	1.1315	421

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
vena cava	UBERON:0004087	92.50	silver quality
cortical plate	UBERON:0005343	90.96	gold quality
body of tongue	UBERON:0011876	90.88	gold quality
kidney epithelium	UBERON:0004819	89.82	silver quality
pons	UBERON:0000988	89.59	gold quality
cardia of stomach	UBERON:0001162	89.03	silver quality
ventral tegmental area	UBERON:0002691	88.94	gold quality
dorsal plus ventral thalamus	UBERON:0001897	88.80	gold quality
tongue	UBERON:0001723	88.63	gold quality
subthalamic nucleus	UBERON:0001906	88.50	gold quality
inferior vagus X ganglion	UBERON:0005363	88.50	gold quality
lateral globus pallidus	UBERON:0002476	88.27	gold quality
medulla oblongata	UBERON:0001896	88.13	gold quality
lateral nuclear group of thalamus	UBERON:0002736	88.13	gold quality
substantia nigra pars reticulata	UBERON:0001966	87.80	gold quality
substantia nigra pars compacta	UBERON:0001965	87.72	gold quality
superior vestibular nucleus	UBERON:0007227	87.70	gold quality
renal medulla	UBERON:0000362	87.66	gold quality
pylorus	UBERON:0001166	87.58	gold quality
cerebellar vermis	UBERON:0004720	87.51	gold quality
trigeminal ganglion	UBERON:0001675	87.14	gold quality
superior surface of tongue	UBERON:0007371	87.06	gold quality
trachea	UBERON:0003126	86.98	gold quality
epithelial cell of pancreas	CL:0000083	86.70	silver quality
pharyngeal mucosa	UBERON:0000355	86.07	gold quality
pericardium	UBERON:0002407	85.97	silver quality
dorsal root ganglion	UBERON:0000044	85.58	gold quality
saphenous vein	UBERON:0007318	85.52	gold quality
nipple	UBERON:0002030	84.51	silver quality
ganglionic eminence	UBERON:0004023	83.86	gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	6.28
E-HCAD-6	no	191.92
E-MTAB-6075	no	88.17

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

207 targeting ZNF793, 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-3613-3P	100.00	76.36	7965
HSA-MIR-4776-3P	100.00	68.73	1340
HSA-MIR-5011-5P	100.00	83.46	5820
HSA-MIR-5692A	100.00	74.40	6850
HSA-MIR-4682	100.00	68.89	1258
HSA-MIR-4425	100.00	67.59	1049
HSA-MIR-8485	100.00	77.57	4731
HSA-MIR-3163	100.00	77.23	8605
HSA-MIR-126-5P	100.00	72.71	3180
HSA-MIR-9-5P	100.00	72.28	2361
HSA-MIR-1277-5P	100.00	73.95	5056
HSA-MIR-3162-3P	100.00	65.37	363
HSA-MIR-371B-5P	99.99	75.34	4759
HSA-MIR-4282	99.99	75.36	6408
HSA-MIR-548C-3P	99.99	74.01	7587
HSA-MIR-3662	99.99	73.82	5684
HSA-MIR-33A-5P	99.99	68.62	1055
HSA-MIR-33B-5P	99.99	68.58	1062
HSA-MIR-150-5P	99.99	66.69	1976
HSA-MIR-373-5P	99.98	75.36	4753
HSA-MIR-616-5P	99.98	75.58	4775
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-5696	99.98	72.36	4487
HSA-MIR-4789-5P	99.98	70.76	2721
HSA-MIR-433-3P	99.98	69.37	1203
HSA-MIR-302C-5P	99.97	72.56	3642
HSA-MIR-607	99.97	73.62	5593
HSA-MIR-548AT-5P	99.96	70.83	2666
HSA-MIR-6778-3P	99.96	67.29	2693
HSA-MIR-3658	99.96	73.87	4379

Literature-anchored findings (GeneRIF, showing 1)

• B3GAT2 and ZNF793 are hypermethylated in BE, and the methylation status of these genes can be used to detect BE in tissue samples. (PMID:26545406)

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
danio_rerio	zfx	ENSDARG00000074453
danio_rerio		ENSDARG00000098424
mus_musculus	Zfy2	ENSMUSG00000000103
mus_musculus	Zfy1	ENSMUSG00000053211
rattus_norvegicus	Zfy1	ENSRNOG00000053042

Paralogs (38): ZFX (ENSG00000005889), ZBTB11 (ENSG00000066422), ZFAT (ENSG00000066827), ZFY (ENSG00000067646), ZNF586 (ENSG00000083828), IKZF5 (ENSG00000095574), ZNF419 (ENSG00000105136), ZNF549 (ENSG00000121406), ZSCAN20 (ENSG00000121903), ZNF304 (ENSG00000131845), PRDM15 (ENSG00000141956), ZNF660 (ENSG00000144792), ZNF711 (ENSG00000147180), ZNF773 (ENSG00000152439), ZNF256 (ENSG00000152454), ZNF837 (ENSG00000152475), ZNF691 (ENSG00000164011), ZNF610 (ENSG00000167554), E4F1 (ENSG00000167967), ZNF562 (ENSG00000171466), ZNF561 (ENSG00000171469), ZNF584 (ENSG00000171574), ZIK1 (ENSG00000171649), ZNF570 (ENSG00000171827), ZSCAN2 (ENSG00000176371), ZNF552 (ENSG00000178935), ZNF154 (ENSG00000179909), ZNF792 (ENSG00000180884), ZNF548 (ENSG00000188785), ZNF79 (ENSG00000196152), ZNF418 (ENSG00000196724), ZNF772 (ENSG00000197128), ZNF583 (ENSG00000198440), ZNF480 (ENSG00000198464), ZNF551 (ENSG00000204519), ZNF134 (ENSG00000213762), ZNF587B (ENSG00000269343), ZNF8 (ENSG00000278129)

Protein

Protein identifiers

Zinc finger protein 793 — Q6ZN11 (reviewed: Q6ZN11)

All UniProt accessions (7): Q6ZN11, K7EL37, K7EMH8, K7EMU0, K7EN11, K7EQP3, K7ERJ7

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.

Isoforms (3)

UniProt ID	Names	Canonical?
Q6ZN11-1	1	yes
Q6ZN11-2	2
Q6ZN11-3	3

RefSeq proteins (1): NP_001013681* (*=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

Pfam: PF00096, PF01352

UniProt features (13 total): zinc finger region 6, sequence variant 2, splice variant 2, chain 1, domain 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q6ZN11-F1	65.94	0.25

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 66 (showing top): GINESTIER_BREAST_CANCER_ZNF217_AMPLIFIED_DN, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, CIITA_TARGET_GENES, KLF7_TARGET_GENES, RYBP_TARGET_GENES, ZNF30_TARGET_GENES, ZNF331_TARGET_GENES, ZNF37A_TARGET_GENES, ZNF407_TARGET_GENES, ZNF596_TARGET_GENES, ZSCAN31_TARGET_GENES, MIR616_5P, MIR371B_5P, MIR373_5P

GO Biological Process (4): regulation of transcription by RNA polymerase II (GO:0006357), regulation of DNA-templated transcription (GO:0006355), regulation of macromolecule metabolic process (GO:0060255), regulation of primary metabolic process (GO:0080090)

GO Molecular Function (6): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), 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 metabolic process	2
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
regulation of DNA-templated transcription	1
transcription by RNA polymerase II	1
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
macromolecule metabolic process	1
primary metabolic process	1
cis-regulatory region sequence-specific DNA binding	1
chromatin	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

370 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF793	OR8B4	Q96RC9	527
ZNF793	OR5AP2	Q8NGF4	507
ZNF793	FBXO48	Q5FWF7	486
ZNF793	FOXD4L6	Q3SYB3	481
ZNF793	OR1L8	Q8NGR8	478
ZNF793	BHLHA9	Q7RTU4	454
ZNF793	OR4D10	Q8NGI6	422
ZNF793	OR2I1	Q8NGU4	419
ZNF793	CCDC127	Q96BQ5	407
ZNF793	C12orf42	Q96LP6	400
ZNF793	NUP62CL	Q9H1M0	399
ZNF793	KLHL5	Q96PQ7	385
ZNF793	SYT9	Q86SS6	375
ZNF793	HTR1E	P28566	304
ZNF793	CITED4	Q96RK1	280

IntAct

8 interactions, top by confidence:

A	B	Type	Score
ZNF793	SIRT1	psi-mi:“MI:0915”(physical association)	0.500
Mecom	ESYT2	psi-mi:“MI:0914”(association)	0.350
ZNF793	PPM1G	psi-mi:“MI:0914”(association)	0.350
TIAM1	ZNF793	psi-mi:“MI:0915”(physical association)	0.000
HUNK	ZNF793	psi-mi:“MI:0915”(physical association)	0.000
RSPH1	ZNF793	psi-mi:“MI:0915”(physical association)	0.000
TULP3	ZNF793	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (8): ZNF793 (Affinity Capture-RNA), ZNF793 (Two-hybrid), ZNF793 (Affinity Capture-MS), ZNF793 (Two-hybrid), ZNF793 (Two-hybrid), ZNF793 (Two-hybrid), SHMT2 (Cross-Linking-MS (XL-MS)), ZNF793 (Cross-Linking-MS (XL-MS))

ESM2 similar proteins: A0JPL0, A3KN36, A7MBI1, A8MT65, B2RXC5, D3ZVT0, P08042, P21506, P51508, P52738, Q02525, Q06730, Q12901, Q2KI58, Q2M218, Q2M3W8, Q2M3X9, Q2VY69, Q49AA0, Q4R6J4, Q4V8A8, Q5FWF6, Q5HY98, Q5RB33, Q5RC79, Q5REF1, Q5T5D7, Q5VIY5, Q61967, Q6P2D0, Q6ZN11, Q86XU0, Q86Y25, Q8N782, Q8N859, Q8NB42, Q8TF39, Q8TF47, Q8WXB4, Q95K49

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

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	60
Likely benign	4
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1648 predictions. Top by Δscore:

Variant	Effect	Δscore
19:37520307:C:G	donor_gain	1.0000
19:37522646:AGGTA:A	donor_loss	1.0000
19:37522647:GGTA:G	donor_loss	1.0000
19:37522648:G:A	donor_loss	1.0000
19:37522649:T:A	donor_loss	1.0000
19:37523399:C:G	acceptor_gain	1.0000
19:37523400:A:AG	acceptor_gain	1.0000
19:37523401:T:G	acceptor_gain	1.0000
19:37523407:CAGG:C	acceptor_loss	1.0000
19:37523452:CAGGT:C	donor_loss	1.0000
19:37523453:AGGT:A	donor_loss	1.0000
19:37532352:ACAG:A	acceptor_loss	1.0000
19:37532353:CAGA:C	acceptor_loss	1.0000
19:37532354:A:AG	acceptor_gain	1.0000
19:37532354:A:AT	acceptor_loss	1.0000
19:37532355:G:A	acceptor_loss	1.0000
19:37532355:G:GG	acceptor_gain	1.0000
19:37532355:GA:G	acceptor_gain	1.0000
19:37532355:GAT:G	acceptor_gain	1.0000
19:37532355:GATA:G	acceptor_gain	1.0000
19:37532355:GATAC:G	acceptor_gain	1.0000
19:37532479:G:GG	donor_gain	1.0000
19:37532480:TGG:T	donor_gain	1.0000
19:37532481:GG:G	donor_gain	1.0000
19:37532481:GGG:G	donor_gain	1.0000
19:37532482:GG:G	donor_gain	1.0000
19:37532482:GGT:G	donor_loss	1.0000
19:37532483:G:GG	donor_gain	1.0000
19:37532483:GT:G	donor_loss	1.0000
19:37532484:T:A	donor_loss	1.0000

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000017433 (19:37514750 T>C), RS1000071103 (19:37515185 G>A), RS1000079874 (19:37511079 A>G,T), RS1000138370 (19:37507817 G>C), RS1000154539 (19:37524279 C>T), RS1000166166 (19:37532957 A>G), RS1000206794 (19:37531860 T>G), RS1000325520 (19:37527359 T>C), RS1000411577 (19:37537841 T>C), RS1000469186 (19:37505555 C>G,T), RS1000489135 (19:37507346 G>C), RS1000526202 (19:37505063 G>A), RS1000556241 (19:37532020 T>TC), RS1000645662 (19:37525294 A>T), RS1000658652 (19:37525532 G>A)

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

2 associations (top):

Study	Trait	p-value
GCST008839_317	Height	5.000000e-08
GCST010002_55	Refractive error	7.000000e-09

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

12 total (human), top 12 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
triphenyl phosphate	affects expression	1
fipronil	affects cotreatment, decreases expression	1
2,3,5-trichloro-6-phenyl-(1,4)benzoquinone	increases expression	1
Sunitinib	decreases expression	1
Benzo(a)pyrene	affects methylation, increases methylation	1
DEET	affects cotreatment, decreases expression	1
Estradiol	affects expression	1
Lead	decreases expression	1
Valproic Acid	decreases expression	1
Aflatoxin B1	increases methylation	1
Cadmium Chloride	increases expression	1
Magnetite Nanoparticles	decreases expression	1

Clinical trials (associated diseases)

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