ZNF441

Summary

ZNF441 (zinc finger protein 441, HGNC:20875) is a protein-coding gene on chromosome 19p13.2, encoding Zinc finger protein 441 (Q8N8Z8). May be involved in transcriptional regulation.

Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription 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 126068 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 77 total
• MANE Select transcript: NM_152355

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:20875
Approved symbol	ZNF441
Name	zinc finger protein 441
Location	19p13.2
Locus type	gene with protein product
Status	Approved
Aliases	FLJ38637
Ensembl gene	ENSG00000197044
Ensembl biotype	protein_coding
Entrez	126068

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 1 protein_coding, 1 nonsense_mediated_decay, 1 retained_intron

ENST00000357901, ENST00000409902, ENST00000462251

RefSeq mRNA: 1 — MANE Select: NM_152355 NM_152355

CCDS: CCDS12266

Canonical transcript exons

ENST00000357901 — 4 exons

Exon	Start	End
ENSE00001737318	11780019	11784078
ENSE00003575711	11778330	11778393
ENSE00003613931	11777611	11777737
ENSE00003849651	11767000	11767196

Expression profiles

Bgee: expression breadth ubiquitous, 207 present calls, max score 88.87.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 4.6095 / max 108.5483, expressed in 1333 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
173965	3.1393	1162
173964	1.1376	528
173966	0.3326	149

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
calcaneal tendon	UBERON:0003701	88.87	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	80.35	gold quality
ventricular zone	UBERON:0003053	80.21	gold quality
ganglionic eminence	UBERON:0004023	79.97	gold quality
cerebellar cortex	UBERON:0002129	79.60	gold quality
descending thoracic aorta	UBERON:0002345	79.60	gold quality
cerebellar hemisphere	UBERON:0002245	79.58	gold quality
right hemisphere of cerebellum	UBERON:0014890	79.47	gold quality
cortical plate	UBERON:0005343	79.01	gold quality
mucosa of stomach	UBERON:0001199	78.47	gold quality
adenohypophysis	UBERON:0002196	78.39	gold quality
cerebellum	UBERON:0002037	77.78	gold quality
tibial artery	UBERON:0007610	77.31	gold quality
popliteal artery	UBERON:0002250	77.30	gold quality
islet of Langerhans	UBERON:0000006	77.01	gold quality
left ovary	UBERON:0002119	76.96	gold quality
smooth muscle tissue	UBERON:0001135	76.94	gold quality
pituitary gland	UBERON:0000007	76.55	gold quality
aorta	UBERON:0000947	76.50	gold quality
right ovary	UBERON:0002118	76.45	gold quality
left lobe of thyroid gland	UBERON:0001120	76.02	gold quality
thoracic aorta	UBERON:0001515	75.90	gold quality
right lobe of thyroid gland	UBERON:0001119	75.82	gold quality
apex of heart	UBERON:0002098	75.76	gold quality
lower esophagus muscularis layer	UBERON:0035833	75.73	gold quality
muscle of leg	UBERON:0001383	75.72	gold quality
gastrocnemius	UBERON:0001388	75.70	gold quality
ascending aorta	UBERON:0001496	75.70	gold quality
lower esophagus	UBERON:0013473	75.67	gold quality
thyroid gland	UBERON:0002046	75.57	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	4.12

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

107 targeting ZNF441, 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-5011-5P	100.00	83.46	5820
HSA-MIR-190A-3P	100.00	80.35	5520
HSA-MIR-4262	100.00	73.26	3931
HSA-MIR-3924	100.00	72.09	2394
HSA-MIR-4768-5P	100.00	69.49	2861
HSA-MIR-6833-3P	100.00	70.63	3197
HSA-MIR-5692A	100.00	74.40	6850
HSA-MIR-511-3P	99.99	68.85	1467
HSA-MIR-181A-5P	99.99	72.96	2995
HSA-MIR-181B-5P	99.99	72.97	2996
HSA-MIR-181C-5P	99.99	72.95	2996
HSA-MIR-181D-5P	99.99	73.04	2997
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-3692-3P	99.98	70.27	2139
HSA-MIR-512-3P	99.97	67.35	1049
HSA-MIR-493-5P	99.96	72.47	2382
HSA-MIR-146A-5P	99.96	68.93	988
HSA-MIR-146B-5P	99.96	69.13	977
HSA-MIR-9718	99.94	68.91	918
HSA-MIR-1236-3P	99.94	68.04	1695
HSA-MIR-9983-3P	99.94	71.48	3631
HSA-MIR-7153-5P	99.94	68.89	1006
HSA-MIR-335-3P	99.93	73.36	4958
HSA-MIR-6508-5P	99.92	70.67	2465
HSA-MIR-5680	99.91	69.83	3421
HSA-MIR-10523-5P	99.91	69.22	2038
HSA-MIR-153-5P	99.89	73.86	6317
HSA-MIR-129-5P	99.88	70.26	3273

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp961	ENSMUSG00000052446
rattus_norvegicus	Zfp617	ENSRNOG00000049856

Paralogs (15): ZNF14 (ENSG00000105708), ZNF57 (ENSG00000171970), ZNF791 (ENSG00000173875), ZNF443 (ENSG00000180855), ZNF101 (ENSG00000181896), ZNF563 (ENSG00000188868), ZNF799 (ENSG00000196466), ZNF700 (ENSG00000196757), ZNF433 (ENSG00000197647), ZNF44 (ENSG00000197857), ZNF823 (ENSG00000197933), ZNF442 (ENSG00000198342), ZNF844 (ENSG00000223547), ZNF709 (ENSG00000242852), ZNF878 (ENSG00000257446)

Protein

Protein identifiers

Zinc finger protein 441 — Q8N8Z8 (reviewed: Q8N8Z8)

All UniProt accessions (2): A0A0A0MSF7, Q8N8Z8

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?
Q8N8Z8-1	1	yes
Q8N8Z8-2	2

RefSeq proteins (1): NP_689568* (*=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 (25 total): zinc finger region 19, sequence conflict 3, chain 1, domain 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8N8Z8-F1	69.67	0.11

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 38 (showing top): chr19p13, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, ZWANG_DOWN_BY_2ND_EGF_PULSE, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, KAT5_TARGET_GENES, PRKDC_TARGET_GENES, RAX2_TARGET_GENES, ZBTB12_TARGET_GENES, ZNF184_TARGET_GENES, ZNF350_TARGET_GENES, ZNF577_TARGET_GENES, MIR5680, MIR1185_1_3P_MIR1185_2_3P, LET_7F_2_3P, MIR4694_3P

GO Biological Process (2): regulation of transcription by RNA polymerase II (GO:0006357), regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (6): RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), zinc ion binding (GO:0008270), DNA binding (GO:0003677), protein binding (GO:0005515), 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
regulation of DNA-templated transcription	1
transcription by RNA polymerase II	1
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
transcription cis-regulatory region binding	1
chromatin	1
RNA polymerase II transcription regulatory region sequence-specific DNA binding	1
DNA-binding transcription factor activity	1
regulation of transcription by RNA polymerase II	1
transition metal ion binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

262 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF441	CIMIP2C	A6NJV1	528
ZNF441	CWF19L2	Q2TBE0	432
ZNF441	APOL5	Q9BWW9	371
ZNF441	GXYLT1	Q4G148	364
ZNF441	KHDC4	Q7Z7F0	354
ZNF441	ERICH1	Q86X53	348
ZNF441	TAF6L	Q9Y6J9	336
ZNF441	BTBD3	Q9Y2F9	298
ZNF441	ZZZ3	Q8IYH5	296
ZNF441	RCBTB1	Q8NDN9	291
ZNF441	HSDL2	Q6YN16	273
ZNF441	RBKS	Q9H477	265
ZNF441	CREBZF	Q9NS37	259
ZNF441	PCBP4	P57723	252
ZNF441	TMF1	P82094	252

IntAct

27 interactions, top by confidence:

A	B	Type	Score
STX1A	ZNF441	psi-mi:“MI:0915”(physical association)	0.560
CYSRT1	ZNF441	psi-mi:“MI:0915”(physical association)	0.560
	ZNF441	psi-mi:“MI:0915”(physical association)	0.560
SPRY1	ZNF441	psi-mi:“MI:0915”(physical association)	0.560
ZNF441	DVL3	psi-mi:“MI:0915”(physical association)	0.560
PCSK6	ZNF441	psi-mi:“MI:0915”(physical association)	0.560
ZNF441	MDFI	psi-mi:“MI:0915”(physical association)	0.560
TEX48	ZNF441	psi-mi:“MI:0915”(physical association)	0.560
ZNF441	PPP2CB	psi-mi:“MI:0914”(association)	0.350
EPHA1	ZNF441	psi-mi:“MI:0915”(physical association)	0.000
ZNF441	CYSRT1	psi-mi:“MI:0915”(physical association)	0.000
ZNF441	STX1A	psi-mi:“MI:0915”(physical association)	0.000
ZNF441		psi-mi:“MI:0915”(physical association)	0.000
ZNF441	SPRY1	psi-mi:“MI:0915”(physical association)	0.000
DVL3	ZNF441	psi-mi:“MI:0915”(physical association)	0.000
ZNF441	PCSK6	psi-mi:“MI:0915”(physical association)	0.000
ZNF441	MDFI	psi-mi:“MI:0915”(physical association)	0.000
ZNF441	TEX48	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (9): ZNF441 (Two-hybrid), ZNF441 (Two-hybrid), ZNF441 (Two-hybrid), ZNF441 (Two-hybrid), ZNF441 (Two-hybrid), ZNF441 (Two-hybrid), CYSRT1 (Two-hybrid), LOC100505478 (Two-hybrid), ZNF441 (Affinity Capture-MS)

ESM2 similar proteins: A6NK75, A6NNF4, A6NP11, A8MTY0, A8MUV8, B4DX44, B4DXR9, O43361, O75346, O75373, O75437, O95780, P0DKX0, P0DPD5, P17019, P17024, Q02386, Q03923, Q03924, Q03936, Q03938, Q14593, Q15928, Q3SXZ3, Q68DY1, Q6JLC9, Q6ZMV8, Q6ZN08, Q7L945, Q86T29, Q86V71, Q8BZW4, Q8IW36, Q8IYN0, Q8N8Z8, Q8NEM1, Q8TB69, Q8TC21, Q8TD23, Q8TF32

Diamond homologs: A0JPK3, A2RRD8, A2VDQ7, A3KN32, A8MUZ8, A8MWA4, C9JN71, E9QAG8, O60384, O60765, O75820, P0CH99, P0CI00, P10076, P10755, P15621, P16374, P16415, P17017, P17024, P51523, P52737, P52740, Q06730, Q06732, Q08AG5, Q0D2J5, Q13106, Q13360, Q15928, Q15935, Q15973, Q32M78, Q3KP31, Q4R4C7, Q4R6J4, Q4R882, Q5R9F0, Q5RC79, Q5REI6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	68
Likely benign	0
Benign	3

Top pathogenic / likely-pathogenic (0)

SpliceAI

451 predictions. Top by Δscore:

Variant	Effect	Δscore
19:11777593:ACAT:A	acceptor_gain	1.0000
19:11777595:ATGT:A	acceptor_gain	1.0000
19:11777596:T:G	acceptor_gain	1.0000
19:11777607:TCAG:T	acceptor_loss	1.0000
19:11777608:CAG:C	acceptor_loss	1.0000
19:11777609:A:AC	acceptor_loss	1.0000
19:11777735:TAGGT:T	donor_loss	1.0000
19:11777736:AGGTA:A	donor_loss	1.0000
19:11777737:GGTA:G	donor_loss	1.0000
19:11777738:G:C	donor_loss	1.0000
19:11777738:G:GG	donor_gain	1.0000
19:11777739:T:G	donor_loss	1.0000
19:11780016:C:G	acceptor_gain	1.0000
19:11780017:A:AC	acceptor_loss	1.0000
19:11780017:A:AG	acceptor_gain	1.0000
19:11780018:G:GG	acceptor_gain	1.0000
19:11780018:GA:G	acceptor_gain	1.0000
19:11780018:GAT:G	acceptor_gain	1.0000
19:11780018:GATGT:G	acceptor_gain	1.0000
19:11767195:TGG:T	donor_loss	0.9900
19:11767196:GGT:G	donor_loss	0.9900
19:11767197:G:A	donor_loss	0.9900
19:11767198:T:G	donor_loss	0.9900
19:11777593:A:AG	acceptor_gain	0.9900
19:11777594:C:G	acceptor_gain	0.9900
19:11777595:A:AG	acceptor_gain	0.9900
19:11777595:AT:A	acceptor_gain	0.9900
19:11777598:T:TA	acceptor_gain	0.9900
19:11777601:A:AG	acceptor_gain	0.9900
19:11777602:A:G	acceptor_gain	0.9900

AlphaMissense

4657 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:11781694:T:C	F624L	0.994
19:11781696:C:A	F624L	0.994
19:11781696:C:G	F624L	0.994
19:11780857:T:C	F345L	0.992
19:11780859:C:A	F345L	0.992
19:11780859:C:G	F345L	0.992
19:11781364:T:C	S514P	0.992
19:11781106:T:C	F428L	0.990
19:11781108:C:A	F428L	0.990
19:11781108:C:G	F428L	0.990
19:11781442:T:C	F540L	0.990
19:11781444:C:A	F540L	0.990
19:11781444:C:G	F540L	0.990
19:11781190:T:C	F456L	0.987
19:11781192:C:A	F456L	0.987
19:11781192:C:G	F456L	0.987
19:11781147:C:A	H441Q	0.986
19:11781147:C:G	H441Q	0.986
19:11781610:T:C	F596L	0.985
19:11781612:T:A	F596L	0.985
19:11781612:T:G	F596L	0.985
19:11780941:T:C	F373L	0.984
19:11780943:T:A	F373L	0.984
19:11780943:T:G	F373L	0.984
19:11781651:C:A	H609Q	0.984
19:11781651:C:G	H609Q	0.984
19:11781778:T:C	F652L	0.984
19:11781780:C:A	F652L	0.984
19:11781780:C:G	F652L	0.984
19:11777644:T:C	F13L	0.983

dbSNP variants (sampled 300 via entrez): RS1000038639 (19:11778445 G>A), RS1000154144 (19:11778737 C>A), RS1000894516 (19:11771965 C>G), RS1000900917 (19:11766268 T>C), RS1001016303 (19:11766523 C>T), RS1001073592 (19:11765372 A>G), RS1001241951 (19:11772252 C>A,G), RS1001545710 (19:11775100 C>T), RS1001588024 (19:11766719 C>T), RS1001624014 (19:11766307 ACT>A), RS1001899286 (19:11771538 T>A), RS1001992520 (19:11773504 G>A), RS1002006005 (19:11767855 G>A), RS1002368869 (19:11777285 A>G), RS1002545459 (19:11782780 T>C)

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

2 associations (top):

Study	Trait	p-value
GCST004521_294	Autism spectrum disorder or schizophrenia	5.000000e-08
GCST009391_843	Metabolite levels	3.000000e-06

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0010400	triacylglycerol 46:0 measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	increases methylation, affects cotreatment, increases expression, decreases expression	5
trichostatin A	affects cotreatment, decreases expression	3
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
TAK-243	increases sumoylation	1
methylmercuric chloride	decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	increases expression	1
sodium arsenite	increases expression	1
perfluorooctanoic acid	increases expression	1
perfluorooctane sulfonic acid	decreases expression	1
perfluoro-n-nonanoic acid	increases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression	1
abrine	increases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
Leflunomide	increases expression	1
Benzo(a)pyrene	decreases methylation, increases methylation	1
Cisplatin	increases expression	1
Ethyl Methanesulfonate	increases expression	1
Formaldehyde	increases expression	1
Hydralazine	affects cotreatment, increases expression	1
Methyl Methanesulfonate	increases expression	1
Quercetin	decreases expression	1
Rifampin	increases expression	1
Urethane	increases expression	1
Aflatoxin B1	increases methylation	1
Acrylamide	increases expression	1

Clinical trials (associated diseases)

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