ZNF347

Summary

ZNF347 (zinc finger protein 347, HGNC:16447) is a protein-coding gene on chromosome 19q13.42, encoding Zinc finger protein 347 (Q96SE7). 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.

Source: NCBI Gene 84671 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 141 total
• MANE Select transcript: NM_032584

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:16447
Approved symbol	ZNF347
Name	zinc finger protein 347
Location	19q13.42
Locus type	gene with protein product
Status	Approved
Aliases	ZNF1111
Ensembl gene	ENSG00000197937
Ensembl biotype	protein_coding
Entrez	84671

Gene structure

Transcript identifiers

Ensembl transcripts: 18 — 17 protein_coding, 1 retained_intron

ENST00000334197, ENST00000452676, ENST00000595710, ENST00000595967, ENST00000597183, ENST00000599096, ENST00000601469, ENST00000601804, ENST00000882585, ENST00000882586, ENST00000882587, ENST00000882588, ENST00000882589, ENST00000882590, ENST00000914572, ENST00000914574, ENST00000948849, ENST00000948850

RefSeq mRNA: 3 — MANE Select: NM_032584 NM_001172674, NM_001172675, NM_032584

CCDS: CCDS33097, CCDS54314

Canonical transcript exons

ENST00000334197 — 5 exons

Exon	Start	End
ENSE00001298405	53148681	53148809
ENSE00002451437	53149241	53149367
ENSE00003135539	53134935	53142556
ENSE00003157594	53159009	53159053
ENSE00003507234	53153733	53153793

Expression profiles

Bgee: expression breadth ubiquitous, 181 present calls, max score 86.38.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 2.1152 / max 78.0778, expressed in 988 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
182554	2.1152	988

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
adrenal tissue	UBERON:0018303	86.38	gold quality
calcaneal tendon	UBERON:0003701	85.35	gold quality
colonic epithelium	UBERON:0000397	84.72	gold quality
sural nerve	UBERON:0015488	84.07	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	81.93	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.08	gold quality
buccal mucosa cell	CL:0002336	79.84	gold quality
tendon	UBERON:0000043	78.50	gold quality
ganglionic eminence	UBERON:0004023	77.97	gold quality
islet of Langerhans	UBERON:0000006	77.23	gold quality
stromal cell of endometrium	CL:0002255	77.20	gold quality
right hemisphere of cerebellum	UBERON:0014890	77.04	gold quality
cortical plate	UBERON:0005343	77.02	gold quality
cerebellar hemisphere	UBERON:0002245	76.93	gold quality
cerebellar cortex	UBERON:0002129	76.88	gold quality
smooth muscle tissue	UBERON:0001135	76.79	gold quality
body of uterus	UBERON:0009853	75.74	gold quality
ventricular zone	UBERON:0003053	75.56	gold quality
cerebellum	UBERON:0002037	75.26	gold quality
right adrenal gland cortex	UBERON:0035827	75.16	gold quality
right ovary	UBERON:0002118	74.94	gold quality
right adrenal gland	UBERON:0001233	74.90	gold quality
adrenal gland	UBERON:0002369	74.83	gold quality
left adrenal gland cortex	UBERON:0035825	74.70	gold quality
left adrenal gland	UBERON:0001234	74.68	gold quality
descending thoracic aorta	UBERON:0002345	74.67	gold quality
left ovary	UBERON:0002119	74.61	gold quality
endocervix	UBERON:0000458	74.36	gold quality
pancreas	UBERON:0001264	74.23	gold quality
spleen	UBERON:0002106	74.02	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	5.59

Regulation

Is transcription factor: yes

JASPAR motifs

Motif	Name	Family
MA2688.1	ZNF347	More than 3 adjacent zinc fingers

JASPAR matrix evidence (PMIDs): PMID:39605320

miRNA regulators (miRDB)

86 targeting ZNF347, 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-4425	100.00	67.59	1049
HSA-MIR-6833-3P	100.00	70.63	3197
HSA-MIR-4768-5P	100.00	69.49	2861
HSA-MIR-3662	99.99	73.82	5684
HSA-MIR-150-5P	99.99	66.69	1976
HSA-MIR-548P	99.98	72.25	3784
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-520D-5P	99.98	73.34	4883
HSA-MIR-524-5P	99.98	73.43	4882
HSA-MIR-590-3P	99.96	74.34	6478
HSA-MIR-1250-3P	99.96	70.04	4038
HSA-MIR-95-5P	99.89	72.17	3973
HSA-MIR-7162-3P	99.89	68.16	1682
HSA-MIR-548D-3P	99.87	70.67	4362
HSA-MIR-579-3P	99.86	71.66	3628
HSA-MIR-548BB-3P	99.86	70.58	4354
HSA-MIR-548AR-3P	99.85	71.26	3889
HSA-MIR-664B-3P	99.84	71.65	3590
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-548AZ-3P	99.82	70.56	3549
HSA-MIR-548BC	99.82	70.61	3524
HSA-MIR-548E-3P	99.82	70.59	3514
HSA-MIR-548F-3P	99.82	70.59	3540
HSA-MIR-548F-5P	99.78	71.02	3093
HSA-MIR-4658	99.77	64.94	514
HSA-MIR-6790-5P	99.77	65.24	505
HSA-MIR-548A-3P	99.76	70.58	3524
HSA-MIR-6505-5P	99.73	69.25	1595

Cross-species orthologs

30 orthologs

Organism	Symbol	Gene ID
danio_rerio	znf646	ENSDARG00000061424
danio_rerio	si:dkey-154p10.3	ENSDARG00000068366
danio_rerio	si:dkey-89b17.4	ENSDARG00000075545
danio_rerio	zgc:66472	ENSDARG00000075916
danio_rerio	si:ch211-148l7.4	ENSDARG00000094469
danio_rerio	znf576.1	ENSDARG00000097819
drosophila_melanogaster	Sry-delta	FBGN0003512
drosophila_melanogaster	az2	FBGN0025185
drosophila_melanogaster	hang	FBGN0026575
drosophila_melanogaster	CG3032	FBGN0029928
drosophila_melanogaster	CG2129	FBGN0030008
drosophila_melanogaster	CG11695	FBGN0030316
drosophila_melanogaster	CG8944	FBGN0030680
drosophila_melanogaster	CG7101	FBGN0030963
drosophila_melanogaster	CG1602	FBGN0033186
drosophila_melanogaster	CG18011	FBGN0033491
drosophila_melanogaster	CG12942	FBGN0033569
drosophila_melanogaster	CG8089	FBGN0033993
drosophila_melanogaster	indra	FBGN0035213
drosophila_melanogaster	CG10654	FBGN0036294
drosophila_melanogaster	CG6791	FBGN0037918
drosophila_melanogaster	CG17803	FBGN0038547
drosophila_melanogaster	CG12219	FBGN0043796
drosophila_melanogaster	CG30020	FBGN0050020
drosophila_melanogaster	pzg	FBGN0259785
drosophila_melanogaster	mld	FBGN0263490
drosophila_melanogaster	zf30C	FBGN0270924
caenorhabditis_elegans	ztf-15	WBGENE00011066
caenorhabditis_elegans		WBGENE00013734
caenorhabditis_elegans		WBGENE00015649

Paralogs (36): ZNF302 (ENSG00000089335), ZNF184 (ENSG00000096654), CTCF (ENSG00000102974), ZNF574 (ENSG00000105732), ZBTB24 (ENSG00000112365), ZNF142 (ENSG00000115568), CTCFL (ENSG00000124092), ZNF473 (ENSG00000142528), ZNF827 (ENSG00000151612), ZNF689 (ENSG00000156853), ZNF208 (ENSG00000160321), ZNF91 (ENSG00000167232), ZNF526 (ENSG00000167625), ZNF764 (ENSG00000169951), ZNF747 (ENSG00000169955), ZNF282 (ENSG00000170265), ZNF160 (ENSG00000170949), ZNF497 (ENSG00000174586), ZBTB34 (ENSG00000177125), ZNF771 (ENSG00000179965), ZNF48 (ENSG00000180035), ZNF594 (ENSG00000180626), ZBTB37 (ENSG00000185278), ZFP92 (ENSG00000189420), ZNF107 (ENSG00000196247), ZNF729 (ENSG00000196350), ZNF569 (ENSG00000196437), ZNF420 (ENSG00000197050), ZNF785 (ENSG00000197162), ZNF665 (ENSG00000197497), ZNF181 (ENSG00000197841), ZNF84 (ENSG00000198040), ZBTB48 (ENSG00000204859), ZNF845 (ENSG00000213799), ZNF99 (ENSG00000213973), ZNF688 (ENSG00000229809)

Protein

Protein identifiers

Zinc finger protein 347 — Q96SE7 (reviewed: Q96SE7)

Alternative names: Zinc finger protein 1111

All UniProt accessions (5): Q96SE7, M0QXR8, M0QZE2, M0QZJ6, M0R1E9

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 (2)

UniProt ID	Names	Canonical?
Q96SE7-1	1	yes
Q96SE7-2	2

RefSeq proteins (3): NP_001166145, NP_001166146, NP_115973* (*=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 (89 total): strand 26, helix 21, zinc finger region 20, turn 13, cross-link 2, sequence variant 2, sequence conflict 2, chain 1, domain 1, splice variant 1

Structure

Experimental structures (PDB)

16 structures.

PDB	Method	Resolution (Å)
2EMA	SOLUTION NMR
2EMP	SOLUTION NMR
2EN4	SOLUTION NMR
2ENE	SOLUTION NMR
2ENF	SOLUTION NMR
2EOE	SOLUTION NMR
2EOW	SOLUTION NMR
2EQ0	SOLUTION NMR
2EQ1	SOLUTION NMR
2EQ2	SOLUTION NMR
2EQ3	SOLUTION NMR
2YTI	SOLUTION NMR
2YTK	SOLUTION NMR
2YTN	SOLUTION NMR
2YTR	SOLUTION NMR
2YU8	SOLUTION NMR

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q96SE7-F1	67.87	0.05

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): 253, 827

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 48 (showing top): MODULE_128, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, MODULE_170, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, MIR579_3P, MIR664B_3P, MIR222_5P, MIR10393_5P, MIR150_3P, MIR6728_3P, MIR6773_3P, MIR1912_5P, GSE10273_HIGH_VS_LOW_IL7_TREATED_IRF4_8_NULL_PRE_BCELL_UP, MIR4686, MIR3137

GO Biological Process (2): regulation of transcription by RNA polymerase II (GO:0006357), regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (5): 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), 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
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
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
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

428 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF347	SPINT1	O43278	503
ZNF347	CIROZ	Q8N9H9	396
ZNF347	DNAJA1	P31689	323
ZNF347	WDR70	Q9NW82	317
ZNF347	NWD2	Q9ULI1	305
ZNF347	RCCD1	A6NED2	303
ZNF347	PNMA1	Q8ND90	299
ZNF347	ZNF704	Q6ZNC4	297
ZNF347	MRPL36	Q9P0J6	293
ZNF347	TBC1D23	Q9NUY8	289
ZNF347	U2SURP	O15042	272
ZNF347	TULP4	Q9NRJ4	265
ZNF347	PITPNB	P48739	258
ZNF347	PPP1R2	P41236	256
ZNF347	PALMD	Q9NP74	253

IntAct

2 interactions, top by confidence:

A	B	Type	Score
	ZNF347	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (1): ZNF347 (Affinity Capture-RNA)

ESM2 similar proteins: A0A087WUL8, A0A0J9YWL9, A0A0J9YY54, A0A0U1RQI7, A6NJ88, A6QL64, B4DH59, D3ZVV1, E9Q6E9, F1LWT0, O04492, O88799, P0DKJ7, P0DKJ8, P0DKL2, P0DPF3, P18583, P53353, Q08AG5, Q0P6D6, Q2EG98, Q3BBV2, Q4ZJZ1, Q5HY64, Q5JPF3, Q5QGU6, Q5TAG4, Q5TI25, Q5XHX6, Q6P3W6, Q6P902, Q6XPR3, Q6ZQX7, Q86T75, Q86VE3, Q86VQ3, Q8N2N9, Q8N660, Q8N693, Q96EQ9

Diamond homologs: A0A1W2PQL4, A6NK75, A6NN14, A6NNF4, A6NP11, A8MQ14, A8MTY0, A8MUV8, A8MXY4, B4DX44, B4DXR9, E9PYI1, O14628, O43345, O75290, O75346, O75373, O75437, O95780, P0CB33, P0DKX0, P0DPD5, P16373, P17019, P17038, P21506, P35789, P52736, P52738, P52744, Q03923, Q03924, Q03936, Q03938, Q05481, Q14586, Q14593, Q14929, Q15928, Q3KNS6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	128
Likely benign	8
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1491 predictions. Top by Δscore:

Variant	Effect	Δscore
19:53132855:CG:C	donor_gain	0.9900
19:53153795:T:C	acceptor_gain	0.9900
19:53132854:A:AC	donor_gain	0.9800
19:53132855:C:CC	donor_gain	0.9800
19:53149280:C:A	donor_gain	0.9800
19:53148814:T:C	acceptor_gain	0.9700
19:53132698:TCA:T	donor_gain	0.9600
19:53148771:C:G	acceptor_gain	0.9600
19:53148816:A:C	acceptor_gain	0.9600
19:53132855:CGCT:C	donor_gain	0.9500
19:53143420:T:TA	donor_gain	0.9500
19:53148788:C:CC	acceptor_gain	0.9500
19:53153795:T:TC	acceptor_gain	0.9500
19:53158531:TCA:T	donor_gain	0.9500
19:53159007:A:AC	donor_gain	0.9500
19:53159008:C:CC	donor_gain	0.9500
19:53159008:CG:C	donor_gain	0.9500
19:53142431:C:A	donor_gain	0.9400
19:53153727:CCTTA:C	donor_loss	0.9400
19:53153728:CTTA:C	donor_loss	0.9400
19:53153729:TTA:T	donor_loss	0.9400
19:53153730:TACCT:T	donor_loss	0.9400
19:53153732:C:A	donor_loss	0.9400
19:53142557:C:CC	acceptor_gain	0.9300
19:53149215:G:T	donor_gain	0.9300
19:53158815:TGA:T	donor_gain	0.9200
19:53158993:A:AC	donor_gain	0.9200
19:53158994:C:CC	donor_gain	0.9200
19:53149211:T:TA	donor_gain	0.9100
19:53149234:T:TA	donor_gain	0.9100

AlphaMissense

5559 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:53141346:A:C	F494L	0.996
19:53141346:A:T	F494L	0.996
19:53141348:A:G	F494L	0.996
19:53141514:A:C	F438L	0.996
19:53141514:A:T	F438L	0.996
19:53141516:A:G	F438L	0.996
19:53140674:A:C	F718L	0.995
19:53140674:A:T	F718L	0.995
19:53140676:A:G	F718L	0.995
19:53141094:G:C	F578L	0.995
19:53141094:G:T	F578L	0.995
19:53141096:A:G	F578L	0.995
19:53141598:G:C	F410L	0.995
19:53141598:G:T	F410L	0.995
19:53141600:A:G	F410L	0.995
19:53140758:A:C	F690L	0.994
19:53140758:A:T	F690L	0.994
19:53140760:A:G	F690L	0.994
19:53141682:A:C	F382L	0.994
19:53141682:A:T	F382L	0.994
19:53141684:A:G	F382L	0.994
19:53141430:A:C	F466L	0.993
19:53141430:A:T	F466L	0.993
19:53141432:A:G	F466L	0.993
19:53141766:G:C	F354L	0.993
19:53141766:G:T	F354L	0.993
19:53141768:A:G	F354L	0.993
19:53141178:G:C	F550L	0.992
19:53141178:G:T	F550L	0.992
19:53141180:A:G	F550L	0.992

dbSNP variants (sampled 300 via entrez): RS1000179911 (19:53146830 A>C), RS1000197385 (19:53159141 G>A,C), RS1000370832 (19:53140732 T>C), RS1000440290 (19:53154593 G>A), RS1000544979 (19:53156406 G>A,C,T), RS1000650468 (19:53155499 ATTT>A,AT,ATTTT), RS1000690474 (19:53142547 G>T), RS1000800298 (19:53148412 G>A), RS1000820717 (19:53136714 T>C), RS1000832034 (19:53136396 T>C), RS1000935066 (19:53160788 A>C), RS1000940639 (19:53144365 G>A), RS1001145442 (19:53142199 A>C), RS1001174491 (19:53158270 G>A), RS1001269209 (19:53158109 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

25 total (human), top 25 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	decreases expression	2
Air Pollutants	decreases expression, increases abundance	2
Benzo(a)pyrene	increases expression, increases methylation	2
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
GSK-J4	decreases expression	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
pirinixic acid	decreases expression, increases activity, affects binding	1
bisphenol A	affects cotreatment, decreases methylation	1
potassium chromate(VI)	increases expression	1
avobenzone	decreases expression	1
di-n-butylphosphoric acid	affects expression	1
Resveratrol	affects cotreatment, increases expression	1
Temozolomide	increases expression	1
Sunitinib	increases expression	1
Fulvestrant	affects cotreatment, decreases methylation	1
Cisplatin	increases expression	1
Plant Extracts	affects cotreatment, increases expression	1
Smoke	decreases expression, increases abundance	1
Urethane	decreases expression	1
Valproic Acid	increases expression	1
Vanadates	decreases expression	1
Aflatoxin B1	increases methylation	1
Copper Sulfate	decreases expression	1
Particulate Matter	decreases expression, increases abundance	1

Clinical trials (associated diseases)

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