ZNF212

Summary

ZNF212 (zinc finger protein 212, HGNC:13004) is a protein-coding gene on chromosome 7q36.1, encoding Zinc finger protein 212 (Q9UDV6). May be involved in transcriptional regulation.

This gene belongs to the C2H2-type zinc finger gene family. The zinc finger proteins are involved in gene regulation and development, and are quite conserved throughout evolution. Like this gene product, a third of the zinc finger proteins containing C2H2 fingers also contain the KRAB domain, which has been found to be involved in protein-protein interactions.

Source: NCBI Gene 7988 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 99 total — 1 pathogenic
• MANE Select transcript: NM_012256

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:13004
Approved symbol	ZNF212
Name	zinc finger protein 212
Location	7q36.1
Locus type	gene with protein product
Status	Approved
Aliases	C2H2-150
Ensembl gene	ENSG00000170260
Ensembl biotype	protein_coding
OMIM	602386
Entrez	7988

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 3 protein_coding, 3 nonsense_mediated_decay

ENST00000335870, ENST00000462724, ENST00000481584, ENST00000486371, ENST00000488917, ENST00000877956

RefSeq mRNA: 1 — MANE Select: NM_012256 NM_012256

CCDS: CCDS5896

Canonical transcript exons

ENST00000335870 — 5 exons

Exon	Start	End
ENSE00001235949	149239651	149239802
ENSE00001361371	149253559	149255606
ENSE00001361374	149250681	149250807
ENSE00001361376	149250159	149250548
ENSE00003516176	149252706	149252795

Expression profiles

Bgee: expression breadth ubiquitous, 280 present calls, max score 90.63.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 7.2213 / max 73.3363, expressed in 1770 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
81888	7.2213	1770

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
lower esophagus mucosa	UBERON:0035834	90.63	gold quality
buccal mucosa cell	CL:0002336	89.61	gold quality
tongue squamous epithelium	UBERON:0006919	89.00	silver quality
oviduct epithelium	UBERON:0004804	88.85	gold quality
pharyngeal mucosa	UBERON:0000355	86.27	gold quality
parotid gland	UBERON:0001831	86.25	gold quality
cervix epithelium	UBERON:0004801	85.53	silver quality
cervix squamous epithelium	UBERON:0006922	84.64	silver quality
renal medulla	UBERON:0000362	84.37	gold quality
fallopian tube	UBERON:0003889	84.15	gold quality
nasal cavity epithelium	UBERON:0005384	84.14	silver quality
cartilage tissue	UBERON:0002418	84.11	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	83.99	gold quality
granulocyte	CL:0000094	83.87	gold quality
lateral nuclear group of thalamus	UBERON:0002736	83.87	silver quality
tongue	UBERON:0001723	83.84	silver quality
body of tongue	UBERON:0011876	83.77	silver quality
superior surface of tongue	UBERON:0007371	83.74	silver quality
cardia of stomach	UBERON:0001162	83.69	silver quality
esophagus mucosa	UBERON:0002469	83.56	gold quality
lateral globus pallidus	UBERON:0002476	83.54	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	83.42	gold quality
skeletal muscle tissue of rectus abdominis	UBERON:0004511	83.29	silver quality
epithelium of esophagus	UBERON:0001976	83.24	gold quality
pancreatic ductal cell	CL:0002079	83.20	silver quality
nipple	UBERON:0002030	83.19	gold quality
subthalamic nucleus	UBERON:0001906	83.16	silver quality
pylorus	UBERON:0001166	83.14	gold quality
ventricular zone	UBERON:0003053	83.14	gold quality
secondary oocyte	CL:0000655	83.04	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	3.26

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

41 targeting ZNF212, 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-4262	100.00	73.26	3931
HSA-MIR-5196-5P	100.00	67.98	2761
HSA-MIR-126-5P	100.00	72.71	3180
HSA-MIR-4747-5P	100.00	67.90	2681
HSA-MIR-5696	99.98	72.36	4487
HSA-MIR-5688	99.96	73.23	4504
HSA-MIR-218-5P	99.93	72.22	2103
HSA-MIR-4495	99.82	72.08	3080
HSA-MIR-6875-3P	99.82	70.26	2983
HSA-MIR-4659A-3P	99.80	72.62	4248
HSA-MIR-4659B-3P	99.80	72.62	4248
HSA-MIR-1283	99.69	72.42	3009
HSA-MIR-1249-5P	99.61	66.55	2049
HSA-MIR-6797-5P	99.61	66.55	2084
HSA-MIR-6128	99.33	67.83	1581
HSA-MIR-4311	99.31	70.47	3041
HSA-MIR-888-5P	99.30	70.15	1855
HSA-MIR-4667-3P	99.26	65.45	1608
HSA-MIR-361-3P	99.19	66.45	1381
HSA-MIR-4263	99.18	69.25	2236
HSA-MIR-3619-5P	99.00	68.87	2308
HSA-MIR-214-3P	98.71	68.12	2128
HSA-MIR-761	98.71	68.07	2051
HSA-MIR-518C-5P	98.53	69.20	1640
HSA-MIR-1470	98.11	63.53	399
HSA-MIR-4469	97.93	65.81	1319
HSA-MIR-449C-3P	97.75	67.86	462
HSA-MIR-4675	97.69	64.82	774
HSA-MIR-4741	97.69	64.14	883
HSA-MIR-6793-3P	97.66	65.78	1084

Literature-anchored findings (GeneRIF, showing 1)

• ZNF212 promotes genomic integrity through direct interaction with TRAIP. (PMID:36594163)

Cross-species orthologs

6 orthologs

Organism	Symbol	Gene ID
danio_rerio	znf574	ENSDARG00000087074
mus_musculus	Zfp212	ENSMUSG00000052763
rattus_norvegicus	Zfp212	ENSRNOG00000006711
drosophila_melanogaster	CG11902	FBGN0028647
drosophila_melanogaster	CG11696	FBGN0030314
drosophila_melanogaster	CG10631	FBGN0032817

Paralogs (7): ZNF671 (ENSG00000083814), ZNF710 (ENSG00000140548), ZNF366 (ENSG00000178175), ZNF662 (ENSG00000182983), ZNF667 (ENSG00000198046), ZNF783 (ENSG00000204946), ZNF865 (ENSG00000261221)

Protein

Protein identifiers

Zinc finger protein 212 — Q9UDV6 (reviewed: Q9UDV6)

Alternative names: Zinc finger protein C2H2-150

All UniProt accessions (5): Q9UDV6, A0A090N8N3, F2Z3G9, H7C589, H7C5A9

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 (1): NP_036388* (*=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, PF13912

UniProt features (12 total): zinc finger region 4, region of interest 4, chain 1, domain 1, compositionally biased region 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9UDV6-F1	54.75	0.14

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 117 (showing top): GSE45365_NK_CELL_VS_CD11B_DC_UP, GOBP_DENDRITE_DEVELOPMENT, GOBP_BEHAVIOR, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, GOBP_NEUROGENESIS, SHIPP_DLBCL_CURED_VS_FATAL_DN, GOBP_NEUROMUSCULAR_PROCESS_CONTROLLING_BALANCE, GOBP_MULTICELLULAR_ORGANISMAL_RESPONSE_TO_STRESS, MODULE_120, GOBP_RESPONSE_TO_OXYGEN_CONTAINING_COMPOUND, AGGAGTG_MIR483, GOBP_NEURON_APOPTOTIC_PROCESS, SPIELMAN_LYMPHOBLAST_EUROPEAN_VS_ASIAN_UP, MODULE_175

GO Biological Process (9): regulation of DNA-templated transcription (GO:0006355), regulation of transcription by RNA polymerase II (GO:0006357), dendrite development (GO:0016358), positive regulation of transcription by RNA polymerase II (GO:0045944), neuromuscular process controlling balance (GO:0050885), neuron apoptotic process (GO:0051402), general adaptation syndrome, behavioral process (GO:0051867), walking behavior (GO:0090659), response to alcohol (GO:0097305)

GO Molecular Function (8): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228), DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), identical protein binding (GO:0042802), DNA binding (GO:0003677), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (2): nucleus (GO:0005634), nucleoplasm (GO:0005654)

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 DNA-templated transcription	2
transcription by RNA polymerase II	2
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
neuron projection development	1
anatomical structure development	1
regulation of transcription by RNA polymerase II	1
positive regulation of DNA-templated transcription	1
musculoskeletal movement	1
neuromuscular process	1
apoptotic process	1
behavior	1
general adaptation syndrome	1
locomotory behavior	1
response to oxygen-containing compound	1
cis-regulatory region sequence-specific DNA binding	1
DNA-binding transcription factor activity, RNA polymerase II-specific	1
DNA-binding transcription activator activity	1
positive regulation of transcription by RNA polymerase II	1
transcription cis-regulatory region binding	1
transcription regulator activity	1
transition metal ion binding	1
protein binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1
nuclear lumen	1
cellular anatomical structure	1

Protein interactions and networks

STRING

1128 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF212	OR10H2	O60403	508
ZNF212	SPACA5B	Q96QH8	472
ZNF212	ZNF579	Q8NAF0	464
ZNF212	C7orf33	Q8WU49	447
ZNF212	ZNF487	B1APH4	446
ZNF212	DRC11L	A6NCM1	433
ZNF212	A0A087WTJ2	A0A087WTJ2	399
ZNF212	WDR86	Q86TI4	399
ZNF212	ZBED10P	Q96FA7	392
ZNF212	TRIM28	Q13263	372
ZNF212	AGAP3	Q96P47	371
ZNF212	LRRC61	Q9BV99	370
ZNF212	ZNF474	Q6S9Z5	359
ZNF212	CXorf38	Q8TB03	358
ZNF212	ZNF862	O60290	329

IntAct

89 interactions, top by confidence:

A	B	Type	Score
FAM90A1	ZNF212	psi-mi:“MI:0915”(physical association)	0.780
ZNF212	FAM90A1	psi-mi:“MI:0915”(physical association)	0.780
ZNF212	SF3A3	psi-mi:“MI:0915”(physical association)	0.670
SF3A3	ZNF212	psi-mi:“MI:0915”(physical association)	0.670
ZNF783	ZNF212	psi-mi:“MI:0915”(physical association)	0.640
ZNF212	ZNF783	psi-mi:“MI:0915”(physical association)	0.640
ZNF212	PRP45	psi-mi:“MI:0915”(physical association)	0.560
GCD7	ZNF212	psi-mi:“MI:0915”(physical association)	0.560
TAE1	ZNF212	psi-mi:“MI:0915”(physical association)	0.560
PRP45	ZNF212	psi-mi:“MI:0915”(physical association)	0.560
ZNF212	GCD7	psi-mi:“MI:0915”(physical association)	0.560
ZNF212	TAE1	psi-mi:“MI:0915”(physical association)	0.560
FAM161B	ZNF212	psi-mi:“MI:0915”(physical association)	0.560
MFAP1	ZNF212	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (72): SF3A3 (Two-hybrid), FAM90A1 (Two-hybrid), LOC155060 (Two-hybrid), ZNF212 (Affinity Capture-MS), ADO (Affinity Capture-MS), ZNF398 (Affinity Capture-MS), ZNF282 (Affinity Capture-MS), ZNF746 (Affinity Capture-MS), ZNF212 (Affinity Capture-MS), EPDR1 (Affinity Capture-MS), ZNF777 (Affinity Capture-MS), DIS3 (Affinity Capture-MS), ZNF212 (Two-hybrid), ZNF212 (Two-hybrid), ZNF212 (Two-hybrid)

ESM2 similar proteins: A0A1D5NS60, A0JN76, A1YFX5, A2T7G6, A6NJL1, D2HQI1, F1MJR8, O14901, P0CG00, P10754, P22227, P98182, Q0IJ29, Q1L8W0, Q3SWU4, Q5DW34, Q5EAC5, Q5EXX3, Q5RHB5, Q5SXI5, Q5T619, Q66H04, Q6NRM8, Q6NV66, Q6ZSB9, Q7M6U3, Q7TS63, Q7TSH3, Q7ZWZ4, Q801P1, Q86VK4, Q8BKX7, Q8BXX2, Q8NAM6, Q8NAP3, Q8NCP5, Q8R0A2, Q91VW9, Q96IT1, Q96N77

Diamond homologs: A0A9P4XV22, A2ANX9, B1H2Q6, O62836, P08048, P0CJ78, P10925, P17010, P17012, P20662, P27705, P28698, P52288, P80944, Q01611, Q03081, Q03125, Q0VDT2, Q29419, Q3U3I9, Q52V16, Q567C6, Q5U2Z0, Q6B4Z5, Q7RTV3, Q95LI3, Q966L8, Q96EG3, Q9UDV6, Q9UL36, Q9Y462, B0K011, B0X9H6, E9Q6W4, O75362, O77459, P31509, P60319, P86413, Q01798

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	1
Likely pathogenic	0
Uncertain significance	81
Likely benign	5
Benign	0

Top pathogenic / likely-pathogenic (1)

Variant ID	HGVS	Classification
3062962	GRCh37/hg19 7q36.1(chr7:148896264-150963866)x1	Pathogenic

SpliceAI

1805 predictions. Top by Δscore:

Variant	Effect	Δscore
7:149239723:G:GT	donor_gain	1.0000
7:149239724:A:T	donor_gain	1.0000
7:149250497:G:GT	donor_gain	1.0000
7:149250498:A:T	donor_gain	1.0000
7:149250778:A:T	donor_gain	1.0000
7:149250785:C:G	donor_gain	1.0000
7:149250803:TCTGA:T	donor_gain	1.0000
7:149250804:CTGA:C	donor_gain	1.0000
7:149250805:TGA:T	donor_gain	1.0000
7:149250806:GA:G	donor_gain	1.0000
7:149250806:GAG:G	donor_gain	1.0000
7:149250807:AG:A	donor_loss	1.0000
7:149250808:G:GG	donor_gain	1.0000
7:149250811:AGTAG:A	donor_loss	1.0000
7:149239798:CTCGG:C	donor_loss	0.9900
7:149239799:TCGG:T	donor_loss	0.9900
7:149239800:CGG:C	donor_loss	0.9900
7:149239804:T:C	donor_loss	0.9900
7:149250157:A:AG	acceptor_gain	0.9900
7:149250158:G:GG	acceptor_gain	0.9900
7:149250158:GC:G	acceptor_gain	0.9900
7:149250158:GCACA:G	acceptor_gain	0.9900
7:149250544:CCAAG:C	donor_loss	0.9900
7:149250545:CAAG:C	donor_loss	0.9900
7:149250546:AAGGT:A	donor_loss	0.9900
7:149250547:AGG:A	donor_loss	0.9900
7:149250548:GGTAG:G	donor_loss	0.9900
7:149250549:GT:G	donor_loss	0.9900
7:149250550:T:A	donor_loss	0.9900
7:149250779:GA:G	donor_gain	0.9900

AlphaMissense

3220 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
7:149254317:T:C	F464L	1.000
7:149254319:T:A	F464L	1.000
7:149254319:T:G	F464L	1.000
7:149254233:T:C	F436L	0.999
7:149254235:C:A	F436L	0.999
7:149254235:C:G	F436L	0.999
7:149254318:T:C	F464S	0.999
7:149254336:T:C	L470P	0.999
7:149254344:C:G	H473D	0.999
7:149254346:C:A	H473Q	0.999
7:149254346:C:G	H473Q	0.999
7:149254260:C:G	H445D	0.998
7:149254262:C:A	H445Q	0.998
7:149254262:C:G	H445Q	0.998
7:149254267:G:C	R447P	0.998
7:149254272:C:G	H449D	0.998
7:149254274:C:A	H449Q	0.998
7:149254274:C:G	H449Q	0.998
7:149254296:T:C	C457R	0.998
7:149254318:T:G	F464C	0.998
7:149254344:C:A	H473N	0.998
7:149254059:T:C	F378L	0.997
7:149254061:C:A	F378L	0.997
7:149254061:C:G	F378L	0.997
7:149254223:T:G	C432W	0.997
7:149254234:T:C	F436S	0.997
7:149254260:C:A	H445N	0.997
7:149254264:A:C	Q446P	0.997
7:149254348:A:C	Q474P	0.997
7:149254356:C:G	H477D	0.997

dbSNP variants (sampled 300 via entrez): RS1000037160 (7:149240821 A>G), RS1000095419 (7:149242354 A>G), RS1000128124 (7:149242006 TTTTTCTTTTC>T,TTTTTC,TTTTTCTTTTCTTTTC), RS1000267570 (7:149252610 C>T), RS1000318756 (7:149239865 G>C), RS1001591580 (7:149238823 T>G), RS1001749850 (7:149244405 C>G,T), RS1001802087 (7:149244230 C>T), RS1001924438 (7:149238557 G>A,C,T), RS1001971610 (7:149253045 G>A,C,T), RS1002002526 (7:149252792 C>T), RS1002020533 (7:149249905 A>C), RS1002141114 (7:149242742 A>G,T), RS1002175595 (7:149246814 T>C), RS1002242959 (7:149249554 A>T)

Disease associations

OMIM: gene MIM:602386 | 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
GCST009391_1423	Metabolite levels	4.000000e-06

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0010452	adenosine diphosphate measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

19 total (human), top 19 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
GSK-J4	increases expression	1
TAK-243	increases sumoylation	1
beta-methylcholine	affects expression	1
di-n-butylphosphoric acid	affects expression	1
abrine	increases expression	1
Resveratrol	affects cotreatment, increases expression	1
Fulvestrant	increases methylation	1
Arsenic	affects methylation	1
Benzo(a)pyrene	increases methylation	1
Ethyl Methanesulfonate	increases expression	1
Formaldehyde	increases expression	1
Methyl Methanesulfonate	increases expression	1
Plant Extracts	affects cotreatment, increases expression	1
Selenium	affects cotreatment, increases expression	1
Silicon Dioxide	increases expression	1
Tobacco Smoke Pollution	increases expression	1
Urethane	increases expression	1
Vitamin E	affects cotreatment, increases expression	1

Clinical trials (associated diseases)

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