ZNF35

Summary

ZNF35 (zinc finger protein 35, HGNC:13099) is a protein-coding gene on chromosome 3p21.31, encoding Zinc finger protein 35 (P13682). May be involved in transcriptional regulation.

Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Predicted to be involved in cellular response to retinoic acid; regulation of transcription by RNA polymerase II; and spermatogenesis. Located in nucleus and perinuclear region of cytoplasm.

Source: NCBI Gene 7584 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 1 total
• MANE Select transcript: NM_003420

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:13099
Approved symbol	ZNF35
Name	zinc finger protein 35
Location	3p21.31
Locus type	gene with protein product
Status	Approved
Aliases	HF.10, HF10, Zfp105
Ensembl gene	ENSG00000169981
Ensembl biotype	protein_coding
OMIM	194533
Entrez	7584

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 9 protein_coding

ENST00000296092, ENST00000396056, ENST00000399560, ENST00000415571, ENST00000432115, ENST00000453164, ENST00000865407, ENST00000865408, ENST00000921897

RefSeq mRNA: 1 — MANE Select: NM_003420 NM_003420

CCDS: CCDS2718

Canonical transcript exons

ENST00000396056 — 4 exons

Exon	Start	End
ENSE00001178523	44658701	44660791
ENSE00001920360	44648732	44648834
ENSE00003468552	44650941	44651259
ENSE00003788954	44652557	44652701

Expression profiles

Bgee: expression breadth ubiquitous, 138 present calls, max score 85.96.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 9.0778 / max 208.2075, expressed in 1736 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
36339	8.8247	1736
202738	0.2531	109

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	85.96	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	82.41	gold quality
corpus callosum	UBERON:0002336	80.56	gold quality
tonsil	UBERON:0002372	79.80	gold quality
islet of Langerhans	UBERON:0000006	78.97	gold quality
ganglionic eminence	UBERON:0004023	78.73	gold quality
bone marrow cell	CL:0002092	78.68	gold quality
smooth muscle tissue	UBERON:0001135	78.18	gold quality
skeletal muscle tissue	UBERON:0001134	77.62	gold quality
stromal cell of endometrium	CL:0002255	77.35	gold quality
calcaneal tendon	UBERON:0003701	77.29	gold quality
colonic epithelium	UBERON:0000397	77.19	gold quality
muscle tissue	UBERON:0002385	76.87	gold quality
cortical plate	UBERON:0005343	76.53	gold quality
urinary bladder	UBERON:0001255	75.35	gold quality
bone marrow	UBERON:0002371	75.22	gold quality
adrenal tissue	UBERON:0018303	74.82	gold quality
sural nerve	UBERON:0015488	74.46	gold quality
skeletal muscle organ	UBERON:0014892	74.37	gold quality
muscle of leg	UBERON:0001383	74.25	gold quality
ventricular zone	UBERON:0003053	74.22	gold quality
gastrocnemius	UBERON:0001388	74.18	gold quality
lower esophagus muscularis layer	UBERON:0035833	74.04	gold quality
lower esophagus	UBERON:0013473	74.01	gold quality
testis	UBERON:0000473	73.60	gold quality
heart left ventricle	UBERON:0002084	73.59	gold quality
endometrium	UBERON:0001295	73.51	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	73.45	gold quality
heart	UBERON:0000948	73.30	gold quality
left coronary artery	UBERON:0001626	73.25	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-GEOD-124858	no	59.25
E-ANND-3	no	0.99

Regulation

Is transcription factor: yes

JASPAR motifs

Motif	Name	Family
MA2333.1	ZNF35	More than 3 adjacent zinc fingers

JASPAR matrix evidence (PMIDs): PMID:8477855

miRNA regulators (miRDB)

34 targeting ZNF35, 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-4531	99.99	69.70	3181
HSA-MIR-3119	99.92	71.34	2390
HSA-MIR-10527-5P	99.91	72.28	3754
HSA-MIR-9902	99.89	69.15	2250
HSA-MIR-30A-3P	99.87	69.74	2928
HSA-MIR-30D-3P	99.87	69.92	2917
HSA-MIR-30E-3P	99.87	69.68	2942
HSA-MIR-4503	99.85	71.45	1869
HSA-MIR-2052	99.79	69.37	2031
HSA-MIR-7856-5P	99.75	69.99	2901
HSA-MIR-10393-3P	99.72	66.56	961
HSA-MIR-6801-5P	99.72	66.50	981
HSA-MIR-545-5P	99.66	70.18	2308
HSA-MIR-561-3P	99.64	70.90	3647
HSA-MIR-1827	99.63	68.57	3265
HSA-MIR-4743-3P	99.62	68.12	2095
HSA-MIR-6751-5P	99.56	64.99	1145
HSA-MIR-3120-3P	99.54	70.28	2669
HSA-MIR-12131	99.48	68.72	1673
HSA-MIR-1275	99.47	67.90	2749
HSA-MIR-21-5P	99.46	70.54	1035
HSA-MIR-6507-3P	99.35	67.32	1059
HSA-MIR-590-5P	99.25	70.76	930
HSA-MIR-1911-3P	99.15	66.17	528
HSA-MIR-6877-3P	98.98	65.83	560
HSA-MIR-6819-3P	98.95	65.57	572
HSA-MIR-2355-5P	98.83	65.51	1589
HSA-MIR-6846-5P	98.81	65.86	1121
HSA-MIR-6848-5P	98.81	65.49	1126
HSA-MIR-6784-3P	98.39	64.88	662

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp105	ENSMUSG00000057895
rattus_norvegicus	Zfp105	ENSRNOG00000079667
drosophila_melanogaster	CG2712	FBGN0024975
drosophila_melanogaster	Phs	FBGN0036522
drosophila_melanogaster	CG3281	FBGN0260741

Paralogs (62): ZNF582 (ENSG00000018869), ZNF264 (ENSG00000083844), ZNF343 (ENSG00000088876), ZNF684 (ENSG00000117010), ZNF133 (ENSG00000125846), ZNF557 (ENSG00000130544), ZNF337 (ENSG00000130684), ZNF20 (ENSG00000132010), ZFP37 (ENSG00000136866), ZNF614 (ENSG00000142556), KRBOX4 (ENSG00000147121), ZNF599 (ENSG00000153896), ZNF19 (ENSG00000157429), ZNF589 (ENSG00000164048), PRDM9 (ENSG00000164256), ZNF180 (ENSG00000167384), ZNF558 (ENSG00000167785), ZNF778 (ENSG00000170100), ZNF439 (ENSG00000171291), ZNF440 (ENSG00000171295), ZNF556 (ENSG00000172000), ZNF554 (ENSG00000172006), ZNF596 (ENSG00000172748), ZNF80 (ENSG00000174255), ZNF266 (ENSG00000174652), ZNF25 (ENSG00000175395), ZNF77 (ENSG00000175691), ZNF169 (ENSG00000175787), ZNF404 (ENSG00000176222), ZNF491 (ENSG00000177599), ZNF620 (ENSG00000177842), ZNF619 (ENSG00000177873), ZNF875 (ENSG00000181666), ZNF329 (ENSG00000181894), ZFP90 (ENSG00000184939), ZNF566 (ENSG00000186017), ZNF529 (ENSG00000186020), ZNF749 (ENSG00000186230), ZNF555 (ENSG00000186300), ZNF70 (ENSG00000187792)

Protein

Protein identifiers

Zinc finger protein 35 — P13682 (reviewed: P13682)

Alternative names: Zinc finger protein HF.10

All UniProt accessions (4): P13682, C9J011, C9JGR2, C9JGS9

UniProt curated annotations — full annotation on UniProt →

Function. May be involved in transcriptional regulation. Involved in cell differentiation and/or proliferation.

Subcellular location. Nucleus.

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

RefSeq proteins (1): NP_003411* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR050758	Znf_C2H2-type	Family

Pfam: PF00096

UniProt features (26 total): zinc finger region 11, cross-link 10, region of interest 2, sequence conflict 2, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P13682-F1	63.62	0.36

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 (10): 20, 21, 99, 117, 125, 144, 158, 189, 214, 276

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 111 (showing top): GOBP_CELLULAR_RESPONSE_TO_LIPID, BROWNE_HCMV_INFECTION_8HR_UP, GOBP_MALE_GAMETE_GENERATION, GOBP_CELLULAR_RESPONSE_TO_OXYGEN_CONTAINING_COMPOUND, PUJANA_CHEK2_PCC_NETWORK, GOBP_CELLULAR_RESPONSE_TO_RETINOIC_ACID, KOYAMA_SEMA3B_TARGETS_UP, SHETH_LIVER_CANCER_VS_TXNIP_LOSS_PAM4, GOBP_RESPONSE_TO_OXYGEN_CONTAINING_COMPOUND, GOBP_RESPONSE_TO_LIPID, RYTTCCTG_ETS2_B, ELK1_01, GOBP_DEVELOPMENTAL_PROCESS_INVOLVED_IN_REPRODUCTION, GOBP_RESPONSE_TO_RETINOIC_ACID, DANG_BOUND_BY_MYC

GO Biological Process (4): regulation of DNA-templated transcription (GO:0006355), regulation of transcription by RNA polymerase II (GO:0006357), spermatogenesis (GO:0007283), cellular response to retinoic acid (GO:0071300)

GO Molecular Function (8): RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), DNA binding (GO:0003677), DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), sequence-specific DNA binding (GO:0043565), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (3): nucleus (GO:0005634), perinuclear region of cytoplasm (GO:0048471), cytoplasm (GO:0005737)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
regulation of DNA-templated transcription	2
transcription cis-regulatory region binding	2
cellular anatomical structure	2
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
transcription by RNA polymerase II	1
developmental process involved in reproduction	1
male gamete generation	1
response to retinoic acid	1
cellular response to lipid	1
cellular response to oxygen-containing compound	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
nucleic acid binding	1
transcription regulator activity	1
transition metal ion binding	1
DNA binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1
cytoplasm	1
intracellular anatomical structure	1

Protein interactions and networks

STRING

428 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF35	ETS2	P15036	447
ZNF35	SATB1	Q01826	433
ZNF35	LEF1	Q9UJU2	405
ZNF35	MEF2C	Q06413	403
ZNF35	ATF5	Q9Y2D1	386
ZNF35	KAT8	Q9H7Z6	383
ZNF35	NFATC4	Q14934	381
ZNF35	GATA3	P23771	356
ZNF35	NFIL3	Q16649	354
ZNF35	TAF6L	Q9Y6J9	352
ZNF35	KCNJ8	Q15842	349
ZNF35	NFE2	Q16621	349
ZNF35	FAM221A	A4D161	337
ZNF35	ID2	Q02363	309
ZNF35	USF2	Q15853	302

IntAct

108 interactions, top by confidence:

A	B	Type	Score
ZNF35	ARIH1	psi-mi:“MI:0915”(physical association)	0.590
ZNF35	ZGPAT	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	CDR2	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	GOLGA2	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	GRIPAP1	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	MCC	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	PICK1	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	NDEL1	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	PRKAR1B	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	PIBF1	psi-mi:“MI:0915”(physical association)	0.560
GOLGA6L9	ZNF35	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	HOOK1	psi-mi:“MI:0915”(physical association)	0.560
	ZNF35	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	MAP3K20	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	HOOK2	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	ZBTB8A	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	HOMER3	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	GEMIN4	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	PNMA1	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	CEP70	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	CDR2L	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	TRAF2	psi-mi:“MI:0915”(physical association)	0.560
FSD2	ZNF35	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	MYD88	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	YJU2B	psi-mi:“MI:0915”(physical association)	0.560
ZNF35	ATPAF2	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (50): ZNF35 (Reconstituted Complex), ZNF35 (Affinity Capture-MS), ZNF35 (Affinity Capture-MS), ZNF35 (Affinity Capture-MS), ZNF35 (Affinity Capture-MS), ARIH1 (Affinity Capture-MS), ZNF35 (Affinity Capture-RNA), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid), ZNF35 (Two-hybrid)

ESM2 similar proteins: A1L1L7, A3KN36, D3ZVT0, O43296, P08042, P13682, P16373, P17023, P17097, P52738, P85977, Q02975, Q12901, Q14590, Q14592, Q2M3W8, Q2VY69, Q4V8A8, Q571J5, Q5CZA5, Q5R7I8, Q5RB33, Q5RBX0, Q61751, Q61967, Q6GQR8, Q6PF04, Q6ZNG0, Q6ZS27, Q86Y25, Q8BFS8, Q8BQC8, Q8IZ26, Q8N782, Q8N9Z0, Q8R1D1, Q8TF47, Q8WTR7, Q96LW1, Q9BS31

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	1
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

587 predictions. Top by Δscore:

Variant	Effect	Δscore
3:44648835:G:GG	donor_gain	1.0000
3:44658693:T:A	acceptor_gain	1.0000
3:44658696:TTCA:T	acceptor_loss	1.0000
3:44648826:C:G	donor_gain	0.9900
3:44648830:GCACA:G	donor_gain	0.9900
3:44648833:CA:C	donor_gain	0.9900
3:44651251:G:GT	donor_gain	0.9900
3:44652555:AGGGT:A	acceptor_gain	0.9900
3:44658694:G:A	acceptor_gain	0.9900
3:44658699:A:AG	acceptor_gain	0.9900
3:44658699:AG:A	acceptor_gain	0.9900
3:44658699:AGGT:A	acceptor_gain	0.9900
3:44658700:G:GG	acceptor_gain	0.9900
3:44658700:GG:G	acceptor_gain	0.9900
3:44658700:GGT:G	acceptor_gain	0.9900
3:44658700:GGTG:G	acceptor_gain	0.9900
3:44650379:G:GG	donor_gain	0.9800
3:44650938:CAGTA:C	acceptor_gain	0.9800
3:44650939:AGTAG:A	acceptor_gain	0.9800
3:44650940:GTA:G	acceptor_gain	0.9800
3:44650940:GTAGG:G	acceptor_gain	0.9800
3:44658700:GGTGC:G	acceptor_gain	0.9800
3:44648833:CAGTG:C	donor_loss	0.9700
3:44648834:AGTG:A	donor_loss	0.9700
3:44648836:TGAGT:T	donor_loss	0.9700
3:44648837:G:GG	donor_loss	0.9700
3:44648838:AG:A	donor_loss	0.9700
3:44650940:G:GA	acceptor_gain	0.9700
3:44651255:AAAAG:A	donor_loss	0.9700
3:44651256:AAAG:A	donor_loss	0.9700

AlphaMissense

3509 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
3:44659088:G:C	R242P	0.999
3:44659138:T:C	F259L	0.999
3:44659140:C:A	F259L	0.999
3:44659140:C:G	F259L	0.999
3:44659157:T:C	L265P	0.999
3:44659222:T:C	F287L	0.999
3:44659224:C:A	F287L	0.999
3:44659224:C:G	F287L	0.999
3:44659241:T:C	L293P	0.999
3:44659474:T:C	F371L	0.999
3:44659476:T:A	F371L	0.999
3:44659476:T:G	F371L	0.999
3:44659558:T:C	F399L	0.999
3:44659560:T:A	F399L	0.999
3:44659560:T:G	F399L	0.999
3:44659577:T:C	L405P	0.999
3:44659642:T:C	F427L	0.999
3:44659644:C:A	F427L	0.999
3:44659644:C:G	F427L	0.999
3:44659726:T:C	F455L	0.999
3:44659728:C:A	F455L	0.999
3:44659728:C:G	F455L	0.999
3:44659810:T:C	F483L	0.999
3:44659812:C:A	F483L	0.999
3:44659812:C:G	F483L	0.999
3:44659829:T:C	L489P	0.999
3:44659894:T:C	F511L	0.999
3:44659896:C:A	F511L	0.999
3:44659896:C:G	F511L	0.999
3:44659054:T:C	F231L	0.998

dbSNP variants (sampled 300 via entrez): RS1000148749 (3:44655788 G>A), RS1000256620 (3:44653048 T>C), RS1000490268 (3:44652498 G>C), RS1000924911 (3:44647485 CA>C), RS1000953859 (3:44647912 A>G), RS1001384063 (3:44645509 T>C), RS1001415301 (3:44645764 C>G), RS1001660889 (3:44651817 A>T), RS1002387039 (3:44647100 T>A), RS1002416428 (3:44647409 C>G), RS1002737492 (3:44653778 G>A), RS1002850018 (3:44649074 A>G), RS1002930197 (3:44650414 C>G), RS1003422385 (3:44657477 A>G,T), RS1003564657 (3:44649300 G>T)

Disease associations

OMIM: gene MIM:194533 | 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
GCST008103_52	Bipolar disorder	3.000000e-07

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
Tobacco Smoke Pollution	increases expression	2
Valproic Acid	decreases expression	2
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
sodium arsenite	increases expression, affects cotreatment, increases abundance	1
manganese chloride	affects cotreatment, increases abundance, increases expression	1
2-palmitoylglycerol	increases expression	1
Acetaminophen	increases expression	1
Air Pollutants	decreases expression, increases abundance	1
Arsenic	affects cotreatment, increases abundance, increases expression	1
Atrazine	decreases expression	1
Coal	decreases expression, increases abundance	1
Copper	decreases expression, affects binding	1
Disulfiram	affects binding, decreases expression	1
Estradiol	increases expression	1
Formaldehyde	decreases expression	1
Manganese	increases abundance, increases expression, affects cotreatment	1
Methotrexate	decreases expression	1
Silicon Dioxide	increases expression	1
Smoke	decreases expression, increases abundance	1
Urethane	increases expression	1
Okadaic Acid	increases expression	1
Copper Sulfate	decreases expression	1
Lactic Acid	decreases expression	1
Magnetite Nanoparticles	decreases methylation	1

Clinical trials (associated diseases)

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