ZNF235

Summary

ZNF235 (zinc finger protein 235, HGNC:12866) is a protein-coding gene on chromosome 19q13.31, encoding Zinc finger protein 235 (Q14590). May be involved in transcriptional regulation.

This gene product belongs to the zinc finger protein superfamily, members of which are regulatory proteins characterized by nucleic acid-binding zinc finger domains. The encoded protein is a member of the Kruppel family of zinc finger proteins, and contains Kruppel-associated box (KRAB) A and B domains and 15 tandemly arrayed C2H2-type zinc fingers. It is an ortholog of the mouse Zfp93 protein. This gene is located in a cluster of zinc finger genes on 19q13.2.

Source: NCBI Gene 9310 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 88 total
• MANE Select transcript: NM_004234

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:12866
Approved symbol	ZNF235
Name	zinc finger protein 235
Location	19q13.31
Locus type	gene with protein product
Status	Approved
Aliases	HZF6, ANF270
Ensembl gene	ENSG00000159917
Ensembl biotype	protein_coding
OMIM	604749
Entrez	9310

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 6 protein_coding, 1 retained_intron, 1 nonsense_mediated_decay

ENST00000291182, ENST00000587921, ENST00000589248, ENST00000589799, ENST00000591609, ENST00000592844, ENST00000650576, ENST00000947914

RefSeq mRNA: 2 — MANE Select: NM_004234 NM_001411071, NM_004234

CCDS: CCDS33048, CCDS92638

Canonical transcript exons

ENST00000291182 — 5 exons

Exon	Start	End
ENSE00001048396	44298808	44298903
ENSE00001300882	44304971	44305025
ENSE00001314795	44286348	44289196
ENSE00002440035	44299606	44299732
ENSE00003621033	44303390	44303452

Expression profiles

Bgee: expression breadth ubiquitous, 177 present calls, max score 86.42.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 2.7080 / max 71.7681, expressed in 1122 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
181388	2.7080	1122

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	86.42	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	84.61	gold quality
secondary oocyte	CL:0000655	81.74	gold quality
colonic epithelium	UBERON:0000397	79.22	gold quality
cortical plate	UBERON:0005343	77.02	gold quality
stromal cell of endometrium	CL:0002255	76.38	gold quality
ganglionic eminence	UBERON:0004023	76.37	gold quality
calcaneal tendon	UBERON:0003701	76.11	gold quality
ventricular zone	UBERON:0003053	75.82	gold quality
adrenal tissue	UBERON:0018303	75.82	gold quality
sural nerve	UBERON:0015488	74.78	gold quality
apex of heart	UBERON:0002098	74.48	gold quality
granulocyte	CL:0000094	74.16	gold quality
tendon	UBERON:0000043	73.74	gold quality
muscle layer of sigmoid colon	UBERON:0035805	72.77	gold quality
right coronary artery	UBERON:0001625	72.24	gold quality
cerebellar hemisphere	UBERON:0002245	72.21	gold quality
cerebellar cortex	UBERON:0002129	72.17	gold quality
islet of Langerhans	UBERON:0000006	71.48	gold quality
hindlimb stylopod muscle	UBERON:0004252	71.47	gold quality
right hemisphere of cerebellum	UBERON:0014890	71.38	gold quality
lower esophagus muscularis layer	UBERON:0035833	71.38	gold quality
popliteal artery	UBERON:0002250	71.34	gold quality
tibial artery	UBERON:0007610	71.34	gold quality
lower esophagus	UBERON:0013473	71.34	gold quality
leukocyte	CL:0000738	71.32	gold quality
cerebellum	UBERON:0002037	71.20	gold quality
monocyte	CL:0000576	70.93	gold quality
hair follicle	UBERON:0002073	70.92	gold quality
oocyte	CL:0000023	70.89	silver quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.98

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): STAT1

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), ZNF714 (ENSG00000160352), ZNF577 (ENSG00000161551), ZNF12 (ENSG00000164631), ZNF3 (ENSG00000166526)

Protein

Protein identifiers

Zinc finger protein 235 — Q14590 (reviewed: Q14590)

Alternative names: Zinc finger protein 270, Zinc finger protein 93 homolog, Zinc finger protein HZF6

All UniProt accessions (5): Q14590, K7EKI9, K7EL19, K7ES94, K7ESF8

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?
Q14590-1	1	yes
Q14590-2	2

RefSeq proteins (2): NP_001398000, NP_004225* (*=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
IPR050589	Ikaros_C2H2-ZF	Family

Pfam: PF00096, PF01352

UniProt features (22 total): zinc finger region 16, sequence conflict 2, chain 1, domain 1, splice variant 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q14590-F1	67.88	0.22

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 72 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_DN, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, RIZ_ERYTHROID_DIFFERENTIATION_APOBEC2, STAT1_01, STAT5A_01, BOCHKIS_FOXA2_TARGETS, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, YAUCH_HEDGEHOG_SIGNALING_PARACRINE_UP, MIKKELSEN_ES_ICP_WITH_H3K4ME3, MIKKELSEN_NPC_ICP_WITH_H3K4ME3, VERHAAK_GLIOBLASTOMA_CLASSICAL, CHYLA_CBFA2T3_TARGETS_UP, BRUINS_UVC_RESPONSE_VIA_TP53_GROUP_A, BRUINS_UVC_RESPONSE_VIA_TP53_GROUP_B

GO Biological Process (2): negative regulation of DNA-templated transcription (GO:0045892), regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (5): DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), sequence-specific DNA binding (GO:0043565), 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
DNA-templated transcription	2
regulation of DNA-templated transcription	2
negative regulation of RNA biosynthetic process	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
transcription cis-regulatory region binding	1
transcription regulator activity	1
transition metal ion binding	1
DNA binding	1
nucleic acid binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

572 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF235	XRCC1	P18887	579
ZNF235	ZFAND5	O76080	547
ZNF235	MAPRE2	Q15555	467
ZNF235	ZBED5	Q49AG3	418
ZNF235	ZNF608	Q9ULD9	370
ZNF235	RASGEF1C	Q8N431	366
ZNF235	CCDC12	Q8WUD4	350
ZNF235	ZMYM5	Q9UJ78	349
ZNF235	ZNF236	Q9UL36	335
ZNF235	RHBDD1	Q8TEB9	293
ZNF235	RSRC1	Q96IZ7	280
ZNF235	COL26A1	Q96A83	269
ZNF235	RFX2	P48378	261
ZNF235	ZBTB20	Q9HC78	241
ZNF235	ZBTB1	Q9Y2K1	222

IntAct

14 interactions, top by confidence:

A	B	Type	Score
TRIM28	ZNF316	psi-mi:“MI:0914”(association)	0.530
SERTAD4	POTEF	psi-mi:“MI:0914”(association)	0.530
TRIM28	ZNF320	psi-mi:“MI:0914”(association)	0.530
ZNF235	CDC37	psi-mi:“MI:0915”(physical association)	0.370
FAM118B	ZNF235	psi-mi:“MI:0915”(physical association)	0.370
MRPL44	ZNF235	psi-mi:“MI:0915”(physical association)	0.370
ZNF235	PFDN1	psi-mi:“MI:0915”(physical association)	0.370
M		psi-mi:“MI:0914”(association)	0.350
FBLN5	ZNF320	psi-mi:“MI:0914”(association)	0.350
NOTCH2	ZNF320	psi-mi:“MI:0914”(association)	0.350
FBLN2	ZNF316	psi-mi:“MI:0914”(association)	0.350
ZNF112	TRIM28	psi-mi:“MI:0914”(association)	0.350
uup	ZNF235	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (16): ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-MS), ZNF235 (Affinity Capture-RNA), ZNF235 (Two-hybrid), ZNF235 (Two-hybrid), ZNF235 (Two-hybrid), ZNF235 (Two-hybrid)

ESM2 similar proteins: A0A087WUV0, A0JNB1, A2VDP4, B2RUI1, P0CG31, P10072, P17025, P17036, P17097, P18733, P51814, Q08ER8, Q09FC8, Q0VGE8, Q14590, Q15937, Q16600, Q2M3X9, Q4V8A8, Q5CZA5, Q5R8G9, Q5RBX0, Q5VIY5, Q68DI1, Q6J6I6, Q6NX49, Q6P1L6, Q6PG37, Q6ZMS4, Q6ZMW2, Q80YP6, Q86UD4, Q86Y25, Q8IZ26, Q8N184, Q8NB42, Q8NEK5, Q8TAF7, Q8TF47, Q8WXB4

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

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	78
Likely benign	6
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1610 predictions. Top by Δscore:

Variant	Effect	Δscore
19:44260029:G:GT	donor_gain	1.0000
19:44264312:A:AG	acceptor_gain	1.0000
19:44264313:G:GG	acceptor_gain	1.0000
19:44264313:GT:G	acceptor_gain	1.0000
19:44264313:GTT:G	acceptor_gain	1.0000
19:44264313:GTTC:G	acceptor_gain	1.0000
19:44264313:GTTCT:G	acceptor_gain	1.0000
19:44264375:GGT:G	donor_loss	1.0000
19:44264376:G:GG	donor_gain	1.0000
19:44266320:AGTGG:A	donor_loss	1.0000
19:44266321:GTGG:G	donor_gain	1.0000
19:44266323:GG:G	donor_gain	1.0000
19:44266324:GG:G	donor_gain	1.0000
19:44266324:GGTGA:G	donor_loss	1.0000
19:44266325:G:GG	donor_gain	1.0000
19:44266325:G:T	donor_loss	1.0000
19:44266862:ACAG:A	acceptor_gain	1.0000
19:44266863:C:G	acceptor_gain	1.0000
19:44266864:A:AG	acceptor_gain	1.0000
19:44266864:A:T	acceptor_loss	1.0000
19:44266864:AG:A	acceptor_gain	1.0000
19:44266865:G:GT	acceptor_gain	1.0000
19:44266865:GG:G	acceptor_gain	1.0000
19:44266865:GGC:G	acceptor_gain	1.0000
19:44266865:GGCT:G	acceptor_gain	1.0000
19:44266865:GGCTA:G	acceptor_gain	1.0000
19:44266958:TCAG:T	donor_loss	1.0000
19:44266959:CAG:C	donor_loss	1.0000
19:44266960:AGG:A	donor_loss	1.0000
19:44266961:GG:G	donor_loss	1.0000

AlphaMissense

4983 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:44288199:G:C	F412L	1.000
19:44288199:G:T	F412L	1.000
19:44288201:A:G	F412L	1.000
19:44288283:G:C	F384L	1.000
19:44288283:G:T	F384L	1.000
19:44288285:A:G	F384L	1.000
19:44287443:G:C	F664L	0.999
19:44287443:G:T	F664L	0.999
19:44287445:A:G	F664L	0.999
19:44287510:A:G	L642P	0.999
19:44287527:G:C	F636L	0.999
19:44287527:G:T	F636L	0.999
19:44287529:A:G	F636L	0.999
19:44287594:A:G	L614P	0.999
19:44287611:G:C	F608L	0.999
19:44287611:G:T	F608L	0.999
19:44287613:A:G	F608L	0.999
19:44287863:G:C	F524L	0.999
19:44287863:G:T	F524L	0.999
19:44287865:A:G	F524L	0.999
19:44287947:A:C	F496L	0.999
19:44287947:A:T	F496L	0.999
19:44287949:A:G	F496L	0.999
19:44288098:A:G	L446P	0.999
19:44288115:A:C	F440L	0.999
19:44288115:A:T	F440L	0.999
19:44288117:A:G	F440L	0.999
19:44288182:A:G	L418P	0.999
19:44288200:A:G	F412S	0.999
19:44288266:A:G	L390P	0.999

dbSNP variants (sampled 300 via entrez): RS1000048032 (19:44304979 G>A,C,T), RS1000086480 (19:44289144 G>A), RS1000304467 (19:44291833 A>G), RS1000357073 (19:44292225 G>C), RS1000551161 (19:44298667 A>G), RS1000703215 (19:44298674 G>A), RS1001063259 (19:44303734 G>A), RS1001094937 (19:44302916 A>G), RS1001170783 (19:44298718 G>A), RS1001311658 (19:44304403 C>T), RS1001433486 (19:44303495 T>C), RS1001593520 (19:44292825 C>T), RS1001645830 (19:44306106 T>G), RS1001719462 (19:44306384 G>A), RS1001983353 (19:44285860 G>T)

Disease associations

OMIM: gene MIM:604749 | 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

22 total (human), top 22 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects expression, affects cotreatment, increases expression	4
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
bisphenol A	increases expression	1
beta-lapachone	increases expression	1
ferrous chloride	decreases expression	1
CGP 52608	affects binding, increases reaction	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, increases expression	1
abrine	increases expression	1
dorsomorphin	affects cotreatment, increases expression	1
Resveratrol	affects cotreatment, increases expression	1
Sunitinib	decreases expression	1
Leflunomide	decreases expression	1
Benzene	increases expression	1
Benzo(a)pyrene	affects methylation	1
Methyl Methanesulfonate	increases expression	1
Plant Extracts	affects cotreatment, increases expression	1
Tetradecanoylphorbol Acetate	affects cotreatment, affects expression	1
Urethane	increases expression	1
Zinc	affects cotreatment, affects expression	1
Copper Sulfate	increases expression	1

Clinical trials (associated diseases)

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