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ZNF532

gene
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Also known as FLJ10697

Summary

ZNF532 (zinc finger protein 532, HGNC:30940) is a protein-coding gene on chromosome 18q21.32, encoding Zinc finger protein 532 (Q9HCE3). May be involved in transcriptional regulation.

Predicted to enable DNA-binding transcription factor activity. Predicted to be involved in regulation of DNA-templated transcription. Predicted to be located in nucleus.

Source: NCBI Gene 55205 — RefSeq curated summary.

At a glance

  • GWAS associations: 2
  • Clinical variants (ClinVar): 141 total
  • MANE Select transcript: NM_001375912

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:30940
Approved symbolZNF532
Namezinc finger protein 532
Location18q21.32
Locus typegene with protein product
StatusApproved
AliasesFLJ10697
Ensembl geneENSG00000074657
Ensembl biotypeprotein_coding
OMIM619066
Entrez55205

Gene structure

Transcript identifiers

Ensembl transcripts: 49 — 39 protein_coding, 4 protein_coding_CDS_not_defined, 3 nonsense_mediated_decay, 3 retained_intron

ENST00000336078, ENST00000585662, ENST00000586085, ENST00000586158, ENST00000586723, ENST00000586997, ENST00000587755, ENST00000588456, ENST00000588543, ENST00000588601, ENST00000588956, ENST00000589131, ENST00000589156, ENST00000589288, ENST00000589403, ENST00000589481, ENST00000590157, ENST00000590285, ENST00000590287, ENST00000590442, ENST00000591049, ENST00000591083, ENST00000591230, ENST00000591808, ENST00000592249, ENST00000592452, ENST00000885936, ENST00000929495, ENST00000929496, ENST00000929497, ENST00000929498, ENST00000929499, ENST00000929500, ENST00000929501, ENST00000929502, ENST00000929503, ENST00000929504, ENST00000929505, ENST00000929506, ENST00000929507, ENST00000929508, ENST00000929509, ENST00000953209, ENST00000953210, ENST00000953211, ENST00000953212, ENST00000953213, ENST00000953214, ENST00000953215

RefSeq mRNA: 20 — MANE Select: NM_001375912 NM_001318726, NM_001318727, NM_001318728, NM_001353525, NM_001353526, NM_001353527, NM_001353528, NM_001353529, NM_001353530, NM_001353531, NM_001353532, NM_001353533, NM_001353534, NM_001353535, NM_001353536, NM_001353537, NM_001353538, NM_001375912, NM_001375913, NM_018181

CCDS: CCDS11969

Canonical transcript exons

ENST00000591808 — 10 exons

ExonStartEnd
ENSE000006698095894806758948229
ENSE000012561115893443358934614
ENSE000013132225898397258986480
ENSE000016479625886547058865579
ENSE000017132785891827158920633
ENSE000029338265886487758865385
ENSE000034900005895351858953799
ENSE000036548555893944558939621
ENSE000036944505897905558979167
ENSE000037913685898147058981617

Expression profiles

Bgee: expression breadth ubiquitous, 283 present calls, max score 98.06.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 11.9743 / max 540.0383, expressed in 1436 samples.

FANTOM5 promoters (14 alternative TSS)

Promoter IDTPM avgSamples expressed
1704433.0012669
1704372.20621035
1704412.0008469
1704341.7549576
1704420.6698260
1704380.6105312
1704350.4316226
1704390.3904187
1704360.3014128
1704400.2285119

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
ganglionic eminenceUBERON:000402398.06gold quality
sural nerveUBERON:001548898.04gold quality
ventricular zoneUBERON:000305397.78gold quality
cortical plateUBERON:000534397.47gold quality
corpus callosumUBERON:000233697.45gold quality
calcaneal tendonUBERON:000370197.39gold quality
right hemisphere of cerebellumUBERON:001489097.26gold quality
descending thoracic aortaUBERON:000234597.21gold quality
cerebellar hemisphereUBERON:000224597.19gold quality
cerebellar cortexUBERON:000212997.18gold quality
cerebellumUBERON:000203797.06gold quality
thoracic aortaUBERON:000151596.44gold quality
olfactory bulbUBERON:000226496.42gold quality
ascending aortaUBERON:000149696.38gold quality
embryoUBERON:000092296.32gold quality
prostate glandUBERON:000236796.21gold quality
aortaUBERON:000094796.04gold quality
tibial nerveUBERON:000132395.96gold quality
gastrocnemiusUBERON:000138895.84gold quality
popliteal arteryUBERON:000225095.76gold quality
muscle of legUBERON:000138395.75gold quality
tibial arteryUBERON:000761095.74gold quality
stromal cell of endometriumCL:000225595.73gold quality
body of uterusUBERON:000985395.65gold quality
tendonUBERON:000004395.38gold quality
left ovaryUBERON:000211995.23gold quality
right coronary arteryUBERON:000162595.16gold quality
ovaryUBERON:000099294.78gold quality
right ovaryUBERON:000211894.77gold quality
inferior olivary complexUBERON:000212794.63gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes6.34
E-MTAB-6142no46.61

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

111 targeting ZNF532, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-200B-3P100.0073.312693
HSA-MIR-200C-3P100.0073.352685
HSA-MIR-429100.0073.442698
HSA-MIR-4481100.0066.421669
HSA-MIR-5011-5P100.0083.465820
HSA-MIR-3134100.0066.43777
HSA-MIR-3646100.0073.565283
HSA-MIR-7110-3P100.0073.182486
HSA-MIR-1277-5P100.0073.955056
HSA-MIR-4476100.0068.182030
HSA-MIR-6876-5P100.0067.682126
HSA-MIR-453499.9966.581907
HSA-MIR-569699.9872.364487
HSA-MIR-4745-5P99.9865.951028
HSA-MIR-32-5P99.9875.211964
HSA-MIR-92A-3P99.9875.211960
HSA-MIR-92B-3P99.9875.251955
HSA-MIR-25-3P99.9874.601817
HSA-MIR-363-3P99.9874.721821
HSA-MIR-367-3P99.9874.831819
HSA-MIR-4789-5P99.9870.762721
HSA-MIR-3692-3P99.9870.272139
HSA-MIR-485-3P99.9870.681585
HSA-MIR-539-3P99.9870.741616
HSA-MIR-568899.9673.234504
HSA-MIR-302E99.9670.742669
HSA-MIR-493-5P99.9672.472382
HSA-MIR-495-3P99.9672.814197
HSA-MIR-570-3P99.9672.414910
HSA-MIR-1468-3P99.9672.743797

Literature-anchored findings (GeneRIF, showing 5)

  • The authors discovered ZNF532 associated with BRD4-NUT in NMC patient cells. ChIP sequencing revealed the formation of ZNF532-NUT-associated hyperacetylated megadomains, distinctly localized but otherwise analogous to those found in BRD4-NUT patient cells. (PMID:28484033)
  • CircZNF532 knockdown protects retinal pigment epithelial cells against high glucose-induced apoptosis and pyroptosis by regulating the miR-20b-5p/STAT3 axis. (PMID:34839589)
  • NUT carcinoma of the parotid gland: report of two cases, one with a rare ZNF532-NUTM1 fusion. (PMID:35064291)
  • Foxhead box D1 promotes the partial epithelial-to-mesenchymal transition of laryngeal squamous cell carcinoma cells via transcriptionally activating the expression of zinc finger protein 532. (PMID:35112956)
  • circZNF532 promotes endothelial-to-mesenchymal transition in diabetic retinopathy by recruiting TAF15 to stabilize PIK3CD. (PMID:38811189)

Cross-species orthologs

12 orthologs

OrganismSymbolGene ID
danio_rerioznf532ENSDARG00000052894
mus_musculusZfp532ENSMUSG00000042439
rattus_norvegicusZfp532ENSRNOG00000017116
drosophila_melanogasterCG9609FBGN0030787
caenorhabditis_elegansWBGENE00009866
caenorhabditis_elegansM04C9.4WBGENE00010859
caenorhabditis_elegansWBGENE00011710
caenorhabditis_elegansWBGENE00012969
caenorhabditis_elegansF57C9.4WBGENE00019011
caenorhabditis_elegansWBGENE00019589
caenorhabditis_elegansWBGENE00022016
caenorhabditis_elegansWBGENE00271744

Paralogs (2): ZNF200 (ENSG00000010539), KRBOX1 (ENSG00000240747)

Protein

Protein identifiers

Zinc finger protein 532 — Q9HCE3 (reviewed: Q9HCE3)

All UniProt accessions (15): Q9HCE3, K7EIU3, K7EJM2, K7EKV7, K7EL14, K7ELB7, K7ELQ2, K7EMF9, K7EN67, K7EP49, K7EPI7, K7EQN0, K7EQW7, K7ER18, K7ES47

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 (20): NP_001305655, NP_001305656, NP_001305657, NP_001340454, NP_001340455, NP_001340456, NP_001340457, NP_001340458, NP_001340459, NP_001340460, NP_001340461, NP_001340462, NP_001340463, NP_001340464, NP_001340465, NP_001340466, NP_001340467, NP_001362841, NP_001362842, NP_060651 (=MANE)

Domains & families (InterPro)

IDNameType
IPR013087Znf_C2H2_typeDomain
IPR036236Znf_C2H2_sfHomologous_superfamily
IPR041697Znf-C2H2_11Domain
IPR045914Zn532-likeFamily
IPR057356Znf-C2H2_ZNF592Domain

Pfam: PF13912, PF16622, PF25412

UniProt features (48 total): zinc finger region 12, compositionally biased region 12, modified residue 10, region of interest 5, cross-link 5, sequence variant 2, chain 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9HCE3-F153.860.08

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 (15): 130, 133, 134, 175, 205, 252, 307, 314, 434, 1140, 459, 516, 980, 1144, 1167

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-9940951Interaction of NuRD complexes with transcription factors

MSigDB gene sets: 207 (showing top): WAMUNYOKOLI_OVARIAN_CANCER_LMP_DN, TGCTGCT_MIR15A_MIR16_MIR15B_MIR195_MIR424_MIR497, TGACCTY_ERR1_Q2, GGGTGGRR_PAX4_03, CHANDRAN_METASTASIS_DN, SREBP1_02, YORDY_RECIPROCAL_REGULATION_BY_ETS1_AND_SP100_DN, CEBALLOS_TARGETS_OF_TP53_AND_MYC_UP, CATTTCA_MIR203, HUTTMANN_B_CLL_POOR_SURVIVAL_DN, TGCTGAY_UNKNOWN, GRE_C, AIYAR_COBRA1_TARGETS_DN, GGGNNTTTCC_NFKB_Q6_01, PYEON_CANCER_HEAD_AND_NECK_VS_CERVICAL_UP

GO Biological Process (1): regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (4): DNA binding (GO:0003677), DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), metal ion binding (GO:0046872)

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

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
NuRD complex assembly1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
DNA-templated transcription1
regulation of gene expression1
regulation of RNA biosynthetic process1
nucleic acid binding1
transcription cis-regulatory region binding1
regulation of DNA-templated transcription1
transcription regulator activity1
transition metal ion binding1
cation binding1
intracellular membrane-bounded organelle1

Protein interactions and networks

STRING

760 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ZNF532NUTM1Q86Y26781
ZNF532NSD3Q9BZ95769
ZNF532BRD3Q15059751
ZNF532BRD4O60885715
ZNF532ZMYND8Q9ULU4682
ZNF532ZNF592Q92610612
ZNF532TAF13Q15543490
ZNF532GTF2E2P29084462
ZNF532ZNF687Q8N1G0456
ZNF532MXD4Q14582453
ZNF532ANKHQ9HCJ1448
ZNF532COL4A4P53420442
ZNF532MXD1Q05195431
ZNF532ZNF800Q2TB10430
ZNF532SLC52A3Q9NQ40420

IntAct

11 interactions, top by confidence:

ABTypeScore
MBD3CDK2AP1psi-mi:“MI:0914”(association)0.730
KPNA4ZNF532psi-mi:“MI:0915”(physical association)0.400
ERBB2ZNF532psi-mi:“MI:0915”(physical association)0.370
ERBB3ZNF532psi-mi:“MI:0915”(physical association)0.370
ERBB4ZNF532psi-mi:“MI:0915”(physical association)0.370
KDM5CCSNK2A1psi-mi:“MI:0914”(association)0.350
ZMYND8MTA3psi-mi:“MI:0914”(association)0.350
MAPTNCANpsi-mi:“MI:0914”(association)0.350
PHF20L1psi-mi:“MI:0914”(association)0.350
BTG3ZNF532psi-mi:“MI:0915”(physical association)0.000

BioGRID (25): ZNF532 (Affinity Capture-MS), ZNF532 (Affinity Capture-MS), ZNF532 (Affinity Capture-RNA), ZNF532 (Affinity Capture-MS), ZNF532 (Affinity Capture-RNA), ZNF532 (Two-hybrid), ZNF532 (Two-hybrid), ZNF532 (Two-hybrid), ZNF532 (Affinity Capture-MS), ZNF532 (Affinity Capture-MS), ZNF532 (Protein-peptide), ZNF532 (Proximity Label-MS), ZNF532 (Proximity Label-MS), ZNF532 (Proximity Label-MS), ZNF532 (Proximity Label-MS)

ESM2 similar proteins: A0A1L8GR68, A2CG63, A2VE56, D3ZHS6, E6ZGB4, F7AQ22, O75376, O88974, P0C6S7, P57768, P57769, Q15047, Q2YDJ8, Q2YDW7, Q4KKX4, Q4LE39, Q52L14, Q5F3F2, Q5F3N6, Q5FWF5, Q5R6Q7, Q5VVJ2, Q60974, Q66JB6, Q68FE8, Q69Z61, Q69Z66, Q69Z69, Q6N043, Q6NXK2, Q7Z6G8, Q86YI8, Q8BIZ1, Q8C080, Q8K2W6, Q8QFX1, Q92560, Q96N64, Q98925, Q99PU7

Diamond homologs: A0A0R4IYX6, F6NSX9, Q6NXK2, Q8BHZ4, Q8N1G0, Q92610, Q9D2D7, Q9HCE3

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 14 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
PIP3 activates AKT signaling525.7×3e-05

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance110
Likely benign12
Benign2

Top pathogenic / likely-pathogenic (0)

SpliceAI

3184 predictions. Top by Δscore:

VariantEffectΔscore
18:58916653:C:CGdonor_gain1.0000
18:58916653:C:Gdonor_gain1.0000
18:58920627:TGGAC:Tdonor_gain1.0000
18:58939439:TAACA:Tacceptor_loss1.0000
18:58939440:AACAG:Aacceptor_loss1.0000
18:58939441:ACAGA:Aacceptor_loss1.0000
18:58939442:CAGAT:Cacceptor_loss1.0000
18:58939443:A:AGacceptor_gain1.0000
18:58939444:G:GGacceptor_gain1.0000
18:58939444:GAT:Gacceptor_gain1.0000
18:58939444:GATGT:Gacceptor_gain1.0000
18:58939617:CCAAA:Cdonor_gain1.0000
18:58939619:AAA:Adonor_gain1.0000
18:58939619:AAAGT:Adonor_loss1.0000
18:58939620:AA:Adonor_gain1.0000
18:58939621:AGT:Adonor_loss1.0000
18:58939622:G:Adonor_loss1.0000
18:58939622:G:GGdonor_gain1.0000
18:58939623:TAA:Tdonor_loss1.0000
18:58953517:GTCT:Gacceptor_gain1.0000
18:58979052:CA:Cacceptor_loss1.0000
18:58979053:A:AGacceptor_gain1.0000
18:58979053:A:ATacceptor_loss1.0000
18:58979054:G:GTacceptor_gain1.0000
18:58979054:GC:Gacceptor_gain1.0000
18:58979054:GCA:Gacceptor_gain1.0000
18:58979054:GCAA:Gacceptor_gain1.0000
18:58979054:GCAAA:Gacceptor_gain1.0000
18:58979056:A:AGacceptor_gain1.0000
18:58979057:A:Gacceptor_gain1.0000

AlphaMissense

8617 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
18:58918312:C:AP9T1.000
18:58918312:C:TP9S1.000
18:58918313:C:AP9Q1.000
18:58918313:C:GP9R1.000
18:58918313:C:TP9L1.000
18:58918315:G:CD10H1.000
18:58918315:G:TD10Y1.000
18:58918316:A:CD10A1.000
18:58918316:A:GD10G1.000
18:58918316:A:TD10V1.000
18:58918318:T:CF11L1.000
18:58918318:T:GF11V1.000
18:58918319:T:CF11S1.000
18:58918319:T:GF11C1.000
18:58918320:T:AF11L1.000
18:58918320:T:GF11L1.000
18:58918321:G:AD12N1.000
18:58918321:G:CD12H1.000
18:58918321:G:TD12Y1.000
18:58918322:A:CD12A1.000
18:58918322:A:GD12G1.000
18:58918322:A:TD12V1.000
18:58918323:T:AD12E1.000
18:58918323:T:GD12E1.000
18:58918324:G:AD13N1.000
18:58918324:G:CD13H1.000
18:58918324:G:TD13Y1.000
18:58918325:A:CD13A1.000
18:58918325:A:GD13G1.000
18:58918325:A:TD13V1.000

dbSNP variants (sampled 300 via entrez): RS1000069462 (18:58973352 C>T), RS1000096945 (18:58886777 A>G), RS1000108272 (18:58968082 T>C), RS1000113959 (18:58930360 C>G,T), RS1000149254 (18:58886388 G>T), RS1000171197 (18:58979635 G>A,C), RS1000247219 (18:58938044 A>G), RS1000257986 (18:58892484 C>T), RS1000276026 (18:58915047 C>G,T), RS1000301806 (18:58949144 T>G), RS1000321331 (18:58937721 G>T), RS1000323514 (18:58877488 A>G), RS1000357688 (18:58944138 C>T), RS1000364534 (18:58967050 A>C), RS1000379875 (18:58898509 T>G)

Disease associations

OMIM: gene MIM:619066 | 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):

StudyTraitp-value
GCST003008_12Triptolide cytotoxicity8.000000e-07
GCST003181_7Staphylococcus aureus nasal carriage (intermittent)7.000000e-07

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0006952cytotoxicity measurement
EFO:0007758intermittent Staphylococcus aureus carrier status

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

46 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
trichostatin Aaffects cotreatment, decreases expression3
(+)-JQ1 compounddecreases expression3
Valproic Aciddecreases expression, increases expression3
bisphenol Sincreases expression, affects cotreatment, decreases methylation2
Benzo(a)pyreneaffects methylation, decreases methylation2
Estradiolaffects cotreatment, increases expression2
Tobacco Smoke Pollutiondecreases expression, increases expression2
Cadmium Chloridedecreases expression, increases abundance2
aristolochic acid Idecreases expression1
FR900359increases phosphorylation1
TAK-243decreases sumoylation1
triphenyl phosphateaffects expression1
alpha-pineneaffects cotreatment, increases oxidation, increases abundance1
bisphenol Aincreases methylation1
beta-lapachoneincreases expression1
sodium arseniteincreases expression1
butyraldehydedecreases expression1
benzo(e)pyreneincreases methylation1
methacrylaldehydeaffects cotreatment, increases oxidation, increases abundance1
pentanaldecreases expression1
di-n-butylphosphoric acidaffects expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
dorsomorphinaffects cotreatment, decreases expression1
Fulvestrantaffects cotreatment, decreases methylation1
Acroleinaffects cotreatment, increases oxidation, increases abundance1
Air Pollutantsincreases oxidation, affects cotreatment, increases abundance1
Atrazinedecreases expression1
Cadmiumdecreases expression, increases abundance1
Dexamethasoneaffects cotreatment, increases expression1
Diethylhexyl Phthalateincreases expression1

Clinical trials (associated diseases)

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

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.

About this page

Generated deterministically by Sugi Atlas from primary biomedical databases via BioBTree. Every record on this page traces to a primary source.

Generated
Atlas version
v1.1.4
BioBTree
v2.0.2

Sources 75

This page pulls from 75 datasets indexed by BioBTree:

alphafoldalphamissenseantibodybgeebgee_evidencebindingdbbiogrid_interactionbrendabrenda_kineticsccdscellosauruschembl_activitychembl_targetciviccivic_evidenceclingen_dosageclingen_gene_validityclinical_trialsclinvarcollectrictd_gene_interactiondbsnpdepmapdiamond_similarityefoensemblentrezesm2_similarityexonfantom5_genefantom5_promotergenccgenerifgogoparentgtopdbgwasgwas_studyhgnchpointactinterprointogenjasparmeshmimmirdbmondomsigdborphanetorthologparalogpdbpfampharmgkb_clinicalpharmgkb_genepharmgkb_guidelinepharmgkb_variantpubchempubchem_activitypubchem_assaypubmedreactomereactomeparentrefseqrhearnacentralscxa_expressionscxa_gene_experimentsignorspliceaistring_interactiontranscriptufeatureuniprot