ZNF570

Summary

ZNF570 (zinc finger protein 570, HGNC:26416) is a protein-coding gene on chromosome 19q13.12, encoding Zinc finger protein 570 (Q96NI8). May be involved in transcriptional regulation.

Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus.

Source: NCBI Gene 148268 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 65 total
• MANE Select transcript: NM_144694

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:26416
Approved symbol	ZNF570
Name	zinc finger protein 570
Location	19q13.12
Locus type	gene with protein product
Status	Approved
Aliases	FLJ30791
Ensembl gene	ENSG00000171827
Ensembl biotype	protein_coding
Entrez	148268

Gene structure

Transcript identifiers

Ensembl transcripts: 10 — 6 protein_coding, 3 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

ENST00000330173, ENST00000586475, ENST00000587363, ENST00000588644, ENST00000589725, ENST00000590664, ENST00000591380, ENST00000867039, ENST00000927574, ENST00000943174

RefSeq mRNA: 6 — MANE Select: NM_144694 NM_001300993, NM_001321991, NM_001321992, NM_001321993, NM_001321994, NM_144694

CCDS: CCDS12504, CCDS74355

Canonical transcript exons

ENST00000330173 — 5 exons

Exon	Start	End
ENSE00000951756	37483879	37488652
ENSE00002250533	37469356	37469557
ENSE00002463461	37476339	37476434
ENSE00003555498	37475881	37476007
ENSE00003626242	37470304	37470387

Expression profiles

Bgee: expression breadth ubiquitous, 238 present calls, max score 88.68.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 4.0820 / max 108.3331, expressed in 1421 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
175555	2.7809	1238
175554	0.7429	464
175556	0.4229	211
175557	0.1354	53

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
sperm	CL:0000019	88.68	gold quality
calcaneal tendon	UBERON:0003701	84.55	gold quality
cortical plate	UBERON:0005343	82.40	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.66	gold quality
medial globus pallidus	UBERON:0002477	81.54	gold quality
secondary oocyte	CL:0000655	79.94	silver quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	79.63	gold quality
ganglionic eminence	UBERON:0004023	79.45	gold quality
epithelial cell of pancreas	CL:0000083	78.96	silver quality
islet of Langerhans	UBERON:0000006	78.80	gold quality
colonic epithelium	UBERON:0000397	78.54	gold quality
globus pallidus	UBERON:0001875	78.44	gold quality
parietal pleura	UBERON:0002400	77.45	gold quality
tendon	UBERON:0000043	77.39	gold quality
corpus callosum	UBERON:0002336	76.83	gold quality
Brodmann (1909) area 23	UBERON:0013554	76.67	silver quality
cerebellar vermis	UBERON:0004720	76.07	gold quality
germinal epithelium of ovary	UBERON:0001304	75.80	gold quality
stromal cell of endometrium	CL:0002255	75.54	gold quality
testis	UBERON:0000473	75.30	gold quality
middle temporal gyrus	UBERON:0002771	75.27	gold quality
ventricular zone	UBERON:0003053	75.12	gold quality
oocyte	CL:0000023	75.11	silver quality
right testis	UBERON:0004534	75.01	gold quality
smooth muscle tissue	UBERON:0001135	74.84	gold quality
pigmented layer of retina	UBERON:0001782	74.81	silver quality
left testis	UBERON:0004533	74.64	gold quality
oviduct epithelium	UBERON:0004804	74.62	gold quality
primary visual cortex	UBERON:0002436	74.43	gold quality
tibia	UBERON:0000979	74.42	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	4.92

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

117 targeting ZNF570, 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-3163	100.00	77.23	8605
HSA-MIR-5692A	100.00	74.40	6850
HSA-MIR-656-3P	100.00	72.15	2788
HSA-MIR-6873-3P	100.00	71.42	2626
HSA-MIR-3613-3P	100.00	76.36	7965
HSA-MIR-1277-5P	100.00	73.95	5056
HSA-MIR-371B-5P	99.99	75.34	4759
HSA-MIR-33A-5P	99.99	68.62	1055
HSA-MIR-33B-5P	99.99	68.58	1062
HSA-MIR-548P	99.98	72.25	3784
HSA-LET-7F-2-3P	99.98	70.98	2588
HSA-MIR-1185-1-3P	99.98	71.04	2593
HSA-MIR-1185-2-3P	99.98	71.04	2593
HSA-MIR-373-5P	99.98	75.36	4753
HSA-MIR-616-5P	99.98	75.58	4775
HSA-MIR-5696	99.98	72.36	4487
HSA-MIR-4482-3P	99.98	72.50	3147
HSA-MIR-507	99.97	70.11	1915
HSA-MIR-3658	99.96	73.87	4379
HSA-MIR-590-3P	99.96	74.34	6478
HSA-MIR-557	99.96	70.01	1640
HSA-MIR-9983-3P	99.94	71.48	3631
HSA-MIR-144-3P	99.94	73.98	2698
HSA-MIR-101-3P	99.94	75.03	2230
HSA-MIR-552-5P	99.93	68.56	1583
HSA-MIR-450B-5P	99.92	71.48	3175
HSA-MIR-5680	99.91	69.83	3421
HSA-MIR-3529-3P	99.90	73.55	3045
HSA-MIR-627-3P	99.90	71.42	3316
HSA-MIR-4731-5P	99.89	67.23	2537

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp39	ENSMUSG00000037001
rattus_norvegicus	Zfp39	ENSRNOG00000014712

Paralogs (38): ZFX (ENSG00000005889), ZBTB11 (ENSG00000066422), ZFAT (ENSG00000066827), ZFY (ENSG00000067646), ZNF586 (ENSG00000083828), IKZF5 (ENSG00000095574), ZNF419 (ENSG00000105136), ZNF549 (ENSG00000121406), ZSCAN20 (ENSG00000121903), ZNF304 (ENSG00000131845), PRDM15 (ENSG00000141956), ZNF660 (ENSG00000144792), ZNF711 (ENSG00000147180), ZNF773 (ENSG00000152439), ZNF256 (ENSG00000152454), ZNF837 (ENSG00000152475), ZNF691 (ENSG00000164011), ZNF610 (ENSG00000167554), E4F1 (ENSG00000167967), ZNF562 (ENSG00000171466), ZNF561 (ENSG00000171469), ZNF584 (ENSG00000171574), ZIK1 (ENSG00000171649), ZSCAN2 (ENSG00000176371), ZNF552 (ENSG00000178935), ZNF154 (ENSG00000179909), ZNF792 (ENSG00000180884), ZNF793 (ENSG00000188227), ZNF548 (ENSG00000188785), ZNF79 (ENSG00000196152), ZNF418 (ENSG00000196724), ZNF772 (ENSG00000197128), ZNF583 (ENSG00000198440), ZNF480 (ENSG00000198464), ZNF551 (ENSG00000204519), ZNF134 (ENSG00000213762), ZNF587B (ENSG00000269343), ZNF8 (ENSG00000278129)

Protein

Protein identifiers

Zinc finger protein 570 — Q96NI8 (reviewed: Q96NI8)

All UniProt accessions (6): Q96NI8, K7EMF5, K7ENX9, K7EP39, K7EP64, K7EQY8

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?
Q96NI8-1	1	yes
Q96NI8-2	2

RefSeq proteins (6): NP_001287922, NP_001308920, NP_001308921, NP_001308922, NP_001308923, NP_653295* (*=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

UniProt features (14 total): zinc finger region 11, chain 1, domain 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q96NI8-F1	71.36	0.49

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 74 (showing top): MAF_Q6, STAT1_02, YKACATTT_UNKNOWN, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, STAT1_03, SNACANNNYSYAGA_UNKNOWN, ALX4_01, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, ALKBH3_TARGET_GENES, ARID5B_TARGET_GENES, CBX5_TARGET_GENES, CBX7_TARGET_GENES, GLI4_TARGET_GENES, H1_6_TARGET_GENES, KLF7_TARGET_GENES

GO Biological Process (3): regulation of transcription by RNA polymerase II (GO:0006357), regulation of DNA-templated transcription (GO:0006355), positive regulation of transcription by RNA polymerase II (GO:0045944)

GO Molecular Function (6): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), zinc ion binding (GO:0008270), transcription cis-regulatory region binding (GO:0000976), 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
transcription by RNA polymerase II	2
regulation of transcription by RNA polymerase II	2
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
regulation of DNA-templated transcription	1
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
positive regulation of DNA-templated transcription	1
cis-regulatory region sequence-specific DNA binding	1
chromatin	1
DNA-binding transcription factor activity	1
transition metal ion binding	1
transcription regulatory region nucleic acid binding	1
sequence-specific double-stranded DNA binding	1
nucleic acid binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

396 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF570	LINC02914	Q52M58	519
ZNF570	FOXL2NB	Q6ZUU3	507
ZNF570	AJAP1	Q9UKB5	506
ZNF570	ANKRD65	E5RJM6	480
ZNF570	C3orf62	Q6ZUJ4	447
ZNF570	MT1A	P04731	445
ZNF570	NUDCD2	Q8WVJ2	427
ZNF570	HOXC4	P09017	420
ZNF570	TMEM60	Q9H2L4	380
ZNF570	LCN9	Q8WX39	370
ZNF570	HOXB4	P17483	370
ZNF570	SHANK2	Q9UPX8	370
ZNF570	RFPL1	O75677	357
ZNF570	MRPL54	Q6P161	348
ZNF570	KCNJ18	B7U540	325

IntAct

0 interactions, top by confidence:

BioGRID (2): ZNF570 (Proximity Label-MS), ZNF570 (Proximity Label-MS)

ESM2 similar proteins: A0JNB1, A6QLU5, O75123, O75820, P10076, P10755, P16374, P17031, P17097, P17141, P51814, Q02975, Q08ER8, Q14588, Q14590, Q32KN0, Q3V080, Q4V8A8, Q5CZA5, Q5R4K8, Q5R5Q6, Q5R9S5, Q5RBX0, Q61751, Q6GQR8, Q6P560, Q6ZMS4, Q7TSH9, Q7TSI0, Q7Z3I7, Q7Z3V5, Q8BLB0, Q8N141, Q8N184, Q8N823, Q8N8J6, Q8N9F8, Q8TBZ5, Q8TF47, Q96ND8

Diamond homologs: A0A1W2PQL4, A6NK75, A6NN14, A6NNF4, A6NP11, A8MQ14, A8MTY0, A8MUV8, A8MXY4, B4DX44, B4DXR9, E9PYI1, O14628, O43345, O75290, O75346, O75373, O75437, O95780, P0CB33, P0DKX0, P0DPD5, P16373, P17019, P17038, P21506, P35789, P52736, P52738, P52744, Q03923, Q03924, Q03936, Q03938, Q05481, Q14586, Q14593, Q14929, Q15928, Q3KNS6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	59
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1079 predictions. Top by Δscore:

Variant	Effect	Δscore
19:37469277:GAC:G	donor_gain	1.0000
19:37469303:G:GT	donor_gain	1.0000
19:37476006:GG:G	donor_gain	1.0000
19:37476007:GG:G	donor_gain	1.0000
19:37476008:G:C	donor_loss	1.0000
19:37476008:G:GG	donor_gain	1.0000
19:37476009:T:A	donor_loss	1.0000
19:37476335:GCA:G	acceptor_loss	1.0000
19:37476336:CAG:C	acceptor_loss	1.0000
19:37476337:A:AG	acceptor_gain	1.0000
19:37476337:AGG:A	acceptor_loss	1.0000
19:37476338:G:GG	acceptor_gain	1.0000
19:37469158:G:GT	donor_gain	0.9900
19:37469367:GGCCC:G	donor_gain	0.9900
19:37469368:GCCCG:G	donor_gain	0.9900
19:37469652:GGCT:G	donor_gain	0.9900
19:37469653:GCTG:G	donor_gain	0.9900
19:37470302:A:AG	acceptor_gain	0.9900
19:37470303:G:GG	acceptor_gain	0.9900
19:37475875:TTTCA:T	acceptor_loss	0.9900
19:37475876:TTCAG:T	acceptor_loss	0.9900
19:37475877:TCA:T	acceptor_loss	0.9900
19:37475879:A:G	acceptor_loss	0.9900
19:37475880:G:GA	acceptor_loss	0.9900
19:37475880:GGA:G	acceptor_gain	0.9900
19:37475963:AC:A	donor_gain	0.9900
19:37475965:A:AG	donor_gain	0.9900
19:37475966:G:GG	donor_gain	0.9900
19:37475991:GATC:G	donor_gain	0.9900
19:37476004:CTGG:C	donor_gain	0.9900

AlphaMissense

3572 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:37484469:T:C	F283L	0.998
19:37484471:C:A	F283L	0.998
19:37484471:C:G	F283L	0.998
19:37484805:T:C	F395L	0.998
19:37484807:T:A	F395L	0.998
19:37484807:T:G	F395L	0.998
19:37484889:T:C	F423L	0.998
19:37484891:C:A	F423L	0.998
19:37484891:C:G	F423L	0.998
19:37484973:T:C	F451L	0.998
19:37484975:T:A	F451L	0.998
19:37484975:T:G	F451L	0.998
19:37485057:T:C	F479L	0.998
19:37485059:T:A	F479L	0.998
19:37485059:T:G	F479L	0.998
19:37484385:T:C	F255L	0.997
19:37484387:C:A	F255L	0.997
19:37484387:C:G	F255L	0.997
19:37484553:T:C	F311L	0.997
19:37484555:C:A	F311L	0.997
19:37484555:C:G	F311L	0.997
19:37484637:T:C	F339L	0.997
19:37484639:T:A	F339L	0.997
19:37484639:T:G	F339L	0.997
19:37484721:T:C	F367L	0.997
19:37484723:T:A	F367L	0.997
19:37484723:T:G	F367L	0.997
19:37484916:C:G	H432D	0.994
19:37484918:T:A	H432Q	0.994
19:37484918:T:G	H432Q	0.994

dbSNP variants (sampled 300 via entrez): RS1000164546 (19:37484128 G>T), RS1000538705 (19:37488488 A>G), RS1000687284 (19:37481676 A>T), RS1001123030 (19:37485926 C>T), RS1001226512 (19:37486472 T>A), RS1001237194 (19:37485672 C>A,G), RS1001365935 (19:37475796 A>G), RS1001566157 (19:37478488 T>C,G), RS1001590538 (19:37482748 C>T), RS1001766804 (19:37466740 T>C), RS1001832937 (19:37468922 G>A), RS1001935843 (19:37472194 G>A), RS1001978196 (19:37487834 G>A), RS1001988769 (19:37472537 T>G), RS1002128615 (19:37487600 G>A)

Disease associations

OMIM: gene `` | 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

21 total (human), top 21 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	decreases expression, increases expression	2
Phenylmercuric Acetate	affects cotreatment, decreases expression	2
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
terbufos	increases methylation	1
tris(1,3-dichloro-2-propyl)phosphate	increases expression	1
di-n-butylphosphoric acid	affects expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
jinfukang	decreases expression, affects cotreatment	1
Benzo(a)pyrene	affects methylation, increases methylation	1
Cisplatin	affects cotreatment, decreases expression	1
Doxorubicin	decreases expression	1
Fonofos	increases methylation	1
Parathion	increases methylation	1
Tobacco Smoke Pollution	increases expression	1
Tretinoin	decreases expression	1
Urethane	increases expression	1
Cyclosporine	increases expression	1
Antirheumatic Agents	increases expression	1

Cellosaurus cell lines

1 cell lines: 1 cancer cell line

First 10 cell lines (id-ordered, not curated):

Cellosaurus	Name	Category	Sex
CVCL_F1RK	HyCyte MCF-7 KO-hZNF570	Cancer cell line	Female

Clinical trials (associated diseases)

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