ZNF821

Summary

ZNF821 (zinc finger protein 821, HGNC:28043) is a protein-coding gene on chromosome 16q22.2, encoding Zinc finger protein 821 (O75541). May be involved in transcriptional regulation.

This gene encodes a protein with two C2H2 zinc finger motifs and a score-and-three (23)-amino acid peptide repeat (STPR) domain. The STPR domain of the encoded protein binds to double stranded DNA and may also contain a nuclear localization signal, suggesting that this protein interacts with chromosomal DNA. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene.

Source: NCBI Gene 55565 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 51 total
• MANE Select transcript: NM_001201552

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28043
Approved symbol	ZNF821
Name	zinc finger protein 821
Location	16q22.2
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000102984
Ensembl biotype	protein_coding
OMIM	621289
Entrez	55565

Gene structure

Transcript identifiers

Ensembl transcripts: 38 — 28 protein_coding, 6 nonsense_mediated_decay, 2 protein_coding_CDS_not_defined, 2 retained_intron

ENST00000313565, ENST00000425432, ENST00000446827, ENST00000561700, ENST00000562677, ENST00000562797, ENST00000562808, ENST00000562985, ENST00000563827, ENST00000563878, ENST00000564134, ENST00000564943, ENST00000565516, ENST00000565601, ENST00000565843, ENST00000566987, ENST00000568322, ENST00000568666, ENST00000568961, ENST00000569186, ENST00000611294, ENST00000861708, ENST00000861709, ENST00000861710, ENST00000861711, ENST00000861712, ENST00000861713, ENST00000861714, ENST00000861715, ENST00000861716, ENST00000918406, ENST00000918407, ENST00000918408, ENST00000918409, ENST00000918410, ENST00000918411, ENST00000958191, ENST00000958192

RefSeq mRNA: 11 — MANE Select: NM_001201552 NM_001201552, NM_001201553, NM_001201554, NM_001201556, NM_001318238, NM_001318239, NM_001376297, NM_001376298, NM_001376299, NM_001376300, NM_017530

CCDS: CCDS32481, CCDS56006, CCDS73911

Canonical transcript exons

ENST00000425432 — 8 exons

Exon	Start	End
ENSE00001405424	71883211	71883273
ENSE00003496359	71859685	71860672
ENSE00003649158	71864138	71864242
ENSE00003671518	71861776	71861942
ENSE00003685047	71879907	71880023
ENSE00003844512	71883908	71884182
ENSE00003891000	71864903	71865048
ENSE00003893249	71867912	71868037

Expression profiles

Bgee: expression breadth ubiquitous, 187 present calls, max score 95.77.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 4.8186 / max 71.7677, expressed in 1542 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
158047	4.3336	1477
158048	0.4851	246

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
cortical plate	UBERON:0005343	95.77	gold quality
ganglionic eminence	UBERON:0004023	94.56	gold quality
cerebellar hemisphere	UBERON:0002245	91.74	gold quality
cerebellar cortex	UBERON:0002129	91.57	gold quality
left testis	UBERON:0004533	91.13	gold quality
right hemisphere of cerebellum	UBERON:0014890	91.09	gold quality
right testis	UBERON:0004534	90.85	gold quality
cerebellum	UBERON:0002037	89.84	gold quality
ventricular zone	UBERON:0003053	89.78	gold quality
testis	UBERON:0000473	88.74	gold quality
prefrontal cortex	UBERON:0000451	85.62	gold quality
adenohypophysis	UBERON:0002196	85.25	gold quality
oocyte	CL:0000023	85.15	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	85.03	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	84.91	gold quality
right frontal lobe	UBERON:0002810	84.66	gold quality
pituitary gland	UBERON:0000007	84.41	gold quality
cingulate cortex	UBERON:0003027	82.87	gold quality
embryo	UBERON:0000922	82.79	gold quality
anterior cingulate cortex	UBERON:0009835	82.79	gold quality
sural nerve	UBERON:0015488	82.20	gold quality
islet of Langerhans	UBERON:0000006	82.18	gold quality
tendon of biceps brachii	UBERON:0008188	82.17	gold quality
Brodmann (1909) area 9	UBERON:0013540	81.83	gold quality
neocortex	UBERON:0001950	81.50	gold quality
skin of leg	UBERON:0001511	81.27	gold quality
frontal cortex	UBERON:0001870	80.96	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	80.81	gold quality
descending thoracic aorta	UBERON:0002345	80.57	gold quality
mucosa of transverse colon	UBERON:0004991	80.48	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-CURD-10	no	56.15
E-ANND-3	no	3.07

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

17 targeting ZNF821, 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-6748-5P	100.00	65.81	1057
HSA-MIR-4747-5P	100.00	67.90	2681
HSA-MIR-5196-5P	100.00	67.98	2761
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-6793-5P	99.97	65.95	758
HSA-MIR-4492	99.87	68.25	3611
HSA-MIR-6756-5P	99.82	67.97	2466
HSA-MIR-577	99.78	69.13	2479
HSA-MIR-6745	99.74	65.33	1321
HSA-MIR-6766-5P	99.68	67.70	2325
HSA-MIR-363-5P	99.46	64.51	1015
HSA-MIR-6780B-3P	99.13	67.18	622
HSA-MIR-4483	98.09	64.12	1642
HSA-MIR-4793-5P	96.88	65.90	872
HSA-MIR-1293	96.16	64.69	916
HSA-MIR-6815-5P	96.05	65.55	662
HSA-MIR-6865-5P	96.05	65.58	675

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
danio_rerio	znf821	ENSDARG00000106989
mus_musculus	Zfp821	ENSMUSG00000031728
rattus_norvegicus	Zfp821	ENSRNOG00000000262
drosophila_melanogaster	CG14442	FBGN0029893
drosophila_melanogaster	CG14440	FBGN0029894

Paralogs (11): IKZF2 (ENSG00000030419), ZNF639 (ENSG00000121864), IKZF4 (ENSG00000123411), ZNF382 (ENSG00000161298), IKZF3 (ENSG00000161405), ZNF613 (ENSG00000176024), IKZF1 (ENSG00000185811), ZNF567 (ENSG00000189042), ZNF649 (ENSG00000198093), ZNF564 (ENSG00000249709), ZNF350 (ENSG00000256683)

Protein

Protein identifiers

Zinc finger protein 821 — O75541 (reviewed: O75541)

All UniProt accessions (11): O75541, A0A087WXX1, A0A0C4DH12, H3BPS7, H3BQE4, H3BR59, H3BR75, H3BRD6, H3BS68, H3BTZ4, H3BVG7

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?
O75541-1	1	yes
O75541-2	2

RefSeq proteins (11): NP_001188481, NP_001188482, NP_001188483, NP_001188485, NP_001305167, NP_001305168, NP_001363226, NP_001363227, NP_001363228, NP_001363229, NP_060000 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily

UniProt features (8 total): zinc finger region 2, region of interest 2, chain 1, coiled-coil region 1, compositionally biased region 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-O75541-F1	59.90	0.21

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 150 (showing top): chr16q22, CMYB_01, RACCACAR_AML_Q6, TAL1ALPHAE47_01, GGGTGGRR_PAX4_03, NFKB_C, MCAATNNNNNGCG_UNKNOWN, TSENG_IRS1_TARGETS_DN, MORF_BCL2L11, MODULE_95, TAL1BETAE47_01, GOCC_NUCLEAR_SPECK, GOCC_NUCLEAR_BODY, GOCC_RIBONUCLEOPROTEIN_GRANULE, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING

GO Biological Process (1): regulation of transcription by RNA polymerase II (GO:0006357)

GO Molecular Function (7): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), sequence-specific double-stranded DNA binding (GO:1990837), DNA binding (GO:0003677), protein binding (GO:0005515), metal ion binding (GO:0046872)

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

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
regulation of DNA-templated transcription	2
transcription by RNA polymerase II	1
RNA polymerase II transcription regulatory region sequence-specific DNA binding	1
cis-regulatory region sequence-specific DNA binding	1
transcription cis-regulatory region binding	1
transcription regulator activity	1
transition metal ion binding	1
double-stranded DNA binding	1
sequence-specific DNA binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

352 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF821	ATXN1L	P0C7T5	597
ZNF821	TRMT61A	Q96FX7	476
ZNF821	RIN2	Q8WYP3	471
ZNF821	TRMT6	Q9UJA5	470
ZNF821	TXNL4B	Q9NX01	465
ZNF821	DHX38	Q92620	430
ZNF821	PMFBP1	Q8TBY8	426
ZNF821	EGR4	Q05215	424
ZNF821	ELF2	Q15723	420
ZNF821	ZNF780A	O75290	391
ZNF821	ZNF740	Q8NDX6	388
ZNF821	ETV2	O00321	385
ZNF821	NCAPD2	Q15021	379
ZNF821	GOLGA6A	Q9NYA3	358
ZNF821	MTHFSD	Q2M296	350

IntAct

16 interactions, top by confidence:

A	B	Type	Score
ZNF821	CDCA7L	psi-mi:“MI:0915”(physical association)	0.560
PIM2	ZNF821	psi-mi:“MI:0915”(physical association)	0.560
ZNF821	PIM2	psi-mi:“MI:0915”(physical association)	0.560
CDCA7L	ZNF821	psi-mi:“MI:0915”(physical association)	0.560
ZNF821	FXR1	psi-mi:“MI:0915”(physical association)	0.370
ZNF821	SMARCA2	psi-mi:“MI:0915”(physical association)	0.370
ZNF821	SPG11	psi-mi:“MI:0915”(physical association)	0.370
CCDC85B	ZNF821	psi-mi:“MI:0915”(physical association)	0.370
ZNF821	LURAP1	psi-mi:“MI:0915”(physical association)	0.370
ATM	ZNF821	psi-mi:“MI:0915”(physical association)	0.370
S100A6	VWA8	psi-mi:“MI:0914”(association)	0.350
MBD3L2	AHCYL1	psi-mi:“MI:0914”(association)	0.350
NRIP1	ZNF821	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (14): ZNF821 (Two-hybrid), ZNF821 (Two-hybrid), ZNF821 (Two-hybrid), LURAP1 (Two-hybrid), ZNF821 (Two-hybrid), RUNDC3A (Two-hybrid), DVL3 (Two-hybrid), ZNF821 (Two-hybrid), ZNF821 (Two-hybrid), ZNF821 (Affinity Capture-MS), ZNF821 (Affinity Capture-MS), ZNF821 (Affinity Capture-MS), ZNF821 (Two-hybrid), ZWILCH (Cross-Linking-MS (XL-MS))

ESM2 similar proteins: A5PMU4, O60663, O75541, O88609, O97581, P29674, P36200, P48742, P50211, P50212, P50480, P50481, P52889, P53405, P53406, P53407, P53408, P53409, P53410, P53411, P53412, P53413, P53776, P61371, P61372, P61373, P61374, P61375, P61376, P63006, P63007, P63008, Q04650, Q32KS7, Q5IS44, Q5IS89, Q60564, Q6H8Q1, Q6KC51, Q6PD05

Diamond homologs: O57415, O75541, Q32KS7, Q3UH06, Q5NVT2, Q642B2, Q6IQ21, Q6PD05, Q8BIQ8, Q92766, Q96MM3, Q99LH4, O42409, O70237, P22227, P25490, Q00899, Q3TTC2, Q5VTD9, Q6DCW1, Q17R98, Q505G8, Q9BE73

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	44
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1749 predictions. Top by Δscore:

Variant	Effect	Δscore
16:71860668:TCTCA:T	acceptor_gain	1.0000
16:71860669:CTCA:C	acceptor_gain	1.0000
16:71860669:CTCAC:C	acceptor_gain	1.0000
16:71860670:TCA:T	acceptor_gain	1.0000
16:71860670:TCACT:T	acceptor_gain	1.0000
16:71860671:CA:C	acceptor_gain	1.0000
16:71860671:CAC:C	acceptor_gain	1.0000
16:71860672:ACTG:A	acceptor_loss	1.0000
16:71860673:C:CC	acceptor_gain	1.0000
16:71860673:C:CG	acceptor_loss	1.0000
16:71864985:T:TA	donor_gain	1.0000
16:71879899:ATACT:A	donor_loss	1.0000
16:71879901:ACT:A	donor_loss	1.0000
16:71879902:CTC:C	donor_loss	1.0000
16:71879904:CA:C	donor_loss	1.0000
16:71879905:A:AC	donor_gain	1.0000
16:71879905:ACA:A	donor_loss	1.0000
16:71879906:C:CG	donor_gain	1.0000
16:71879906:CA:C	donor_gain	1.0000
16:71879906:CAGTG:C	donor_gain	1.0000
16:71880019:CTAAC:C	acceptor_gain	1.0000
16:71880020:TAAC:T	acceptor_gain	1.0000
16:71880021:AAC:A	acceptor_gain	1.0000
16:71880021:AACC:A	acceptor_loss	1.0000
16:71880022:AC:A	acceptor_gain	1.0000
16:71880023:CC:C	acceptor_gain	1.0000
16:71880024:C:CA	acceptor_loss	1.0000
16:71880024:C:CC	acceptor_gain	1.0000
16:71880025:T:C	acceptor_loss	1.0000
16:71883183:G:C	donor_gain	1.0000

AlphaMissense

2712 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
16:71860195:C:A	R354S	1.000
16:71860195:C:G	R354S	1.000
16:71860207:C:A	K350N	1.000
16:71860207:C:G	K350N	1.000
16:71860209:T:C	K350E	1.000
16:71860212:C:G	A349P	1.000
16:71860217:C:G	R347P	1.000
16:71860221:C:T	E346K	1.000
16:71860223:C:G	R345P	1.000
16:71860229:A:G	L343P	1.000
16:71860281:C:G	A326P	1.000
16:71860292:C:G	R322P	1.000
16:71860298:A:G	L320P	1.000
16:71860335:G:T	R308S	1.000
16:71860345:C:A	K304N	1.000
16:71860345:C:G	K304N	1.000
16:71860347:T:C	K304E	1.000
16:71860370:C:A	R296M	1.000
16:71861822:A:G	C180R	1.000
16:71861854:A:G	L169P	1.000
16:71861856:G:C	H168Q	1.000
16:71861856:G:T	H168Q	1.000
16:71861857:T:C	H168R	1.000
16:71861858:G:C	H168D	1.000
16:71861858:G:T	H168N	1.000
16:71861895:A:C	C155W	1.000
16:71861896:C:T	C155Y	1.000
16:71861897:A:G	C155R	1.000
16:71861904:A:C	C152W	1.000
16:71861906:A:G	C152R	1.000

dbSNP variants (sampled 300 via entrez): RS1000083044 (16:71860637 A>G,T), RS1000088789 (16:71889386 A>G), RS1000283993 (16:71884083 C>T), RS1000287692 (16:71895226 G>A), RS1000328821 (16:71890110 A>C), RS1000373897 (16:71861543 T>C), RS1000448127 (16:71862081 GA>G), RS1000649436 (16:71884858 T>G), RS1000660385 (16:71891431 C>G,T), RS1000693730 (16:71873726 T>G), RS1000743611 (16:71861200 C>A), RS1001020240 (16:71885115 C>A,G,T), RS1001051097 (16:71884914 A>G), RS1001100767 (16:71890936 A>C), RS1001145212 (16:71873939 G>A,C)

Disease associations

OMIM: gene MIM:621289 | 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

24 total (human), top 24 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Particulate Matter	decreases expression, increases abundance	2
alpha-pinene	affects cotreatment, increases expression, increases abundance	1
bisphenol A	affects cotreatment, increases expression	1
afimoxifene	decreases expression, decreases reaction	1
tris(1,3-dichloro-2-propyl)phosphate	increases expression	1
methacrylaldehyde	increases abundance, affects cotreatment, increases expression	1
abrine	increases expression	1
Acrolein	affects cotreatment, increases expression, increases abundance	1
Air Pollutants	increases abundance, increases expression, affects cotreatment	1
Arsenic	affects methylation	1
Vehicle Emissions	decreases expression, increases abundance	1
Dexamethasone	affects cotreatment, increases expression	1
Estradiol	decreases expression	1
Estrogens	decreases expression, decreases reaction	1
Gallic Acid	decreases expression	1
Indomethacin	affects cotreatment, increases expression	1
Ozone	affects cotreatment, increases expression, increases abundance	1
Phthalic Acids	increases methylation	1
Tobacco Smoke Pollution	decreases expression	1
Urethane	decreases expression, increases expression	1
Zinc	decreases expression	1
1-Methyl-3-isobutylxanthine	affects cotreatment, increases expression	1
Okadaic Acid	decreases expression	1
Volatile Organic Compounds	increases expression, affects cotreatment	1

Clinical trials (associated diseases)

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