ZNF829

Summary

ZNF829 (zinc finger protein 829, HGNC:34032) is a protein-coding gene on chromosome 19q13.12, encoding Zinc finger protein 829 (Q3KNS6). 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 located in nucleus.

Source: NCBI Gene 374899 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 27 total
• MANE Select transcript: NM_001037232

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:34032
Approved symbol	ZNF829
Name	zinc finger protein 829
Location	19q13.12
Locus type	gene with protein product
Status	Approved
Aliases	DKFZp779O175
Ensembl gene	ENSG00000185869
Ensembl biotype	protein_coding
Entrez	374899

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 3 protein_coding, 1 retained_intron

ENST00000391711, ENST00000520907, ENST00000520965, ENST00000898763

RefSeq mRNA: 2 — MANE Select: NM_001037232 NM_001037232, NM_001171979

CCDS: CCDS42557, CCDS59380

Canonical transcript exons

ENST00000391711 — 6 exons

Exon	Start	End
ENSE00002123122	36916011	36916291
ENSE00002130171	36888124	36892471
ENSE00002507445	36907929	36908024
ENSE00003487087	36908333	36908459
ENSE00003566113	36915130	36915251
ENSE00003667042	36914965	36915022

Expression profiles

Bgee: expression breadth ubiquitous, 189 present calls, max score 84.34.

FANTOM5 (CAGE): breadth broad, TPM avg 1.7210 / max 31.1260, expressed in 908 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
180701	0.8644	494
180700	0.8304	484
180699	0.0167	4
180702	0.0096	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
sperm	CL:0000019	84.34	gold quality
secondary oocyte	CL:0000655	80.14	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	79.15	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	77.52	gold quality
calcaneal tendon	UBERON:0003701	75.42	gold quality
ventricular zone	UBERON:0003053	74.48	gold quality
ganglionic eminence	UBERON:0004023	74.05	gold quality
endothelial cell	CL:0000115	73.23	silver quality
cortical plate	UBERON:0005343	72.68	gold quality
testis	UBERON:0000473	72.32	gold quality
cardiac muscle of right atrium	UBERON:0003379	72.17	gold quality
right testis	UBERON:0004534	72.10	gold quality
left ventricle myocardium	UBERON:0006566	71.73	gold quality
left testis	UBERON:0004533	71.59	gold quality
parotid gland	UBERON:0001831	71.21	gold quality
stromal cell of endometrium	CL:0002255	69.59	gold quality
superficial temporal artery	UBERON:0001614	69.59	gold quality
oocyte	CL:0000023	69.31	silver quality
islet of Langerhans	UBERON:0000006	68.71	gold quality
tendon	UBERON:0000043	68.63	gold quality
endometrium	UBERON:0001295	67.86	gold quality
germinal epithelium of ovary	UBERON:0001304	67.82	silver quality
amniotic fluid	UBERON:0000173	67.56	silver quality
smooth muscle tissue	UBERON:0001135	67.16	gold quality
epithelium of nasopharynx	UBERON:0001951	67.11	silver quality
oviduct epithelium	UBERON:0004804	67.01	silver quality
upper arm skin	UBERON:0004263	66.79	gold quality
epithelium of mammary gland	UBERON:0003244	66.64	silver quality
gingival epithelium	UBERON:0001949	66.60	gold quality
mammary duct	UBERON:0001765	66.55	silver quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-MTAB-6386	no	351.97
E-CURD-10	no	250.51
E-ANND-3	no	6.01

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

112 targeting ZNF829, 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-3924	100.00	72.09	2394
HSA-MIR-3613-3P	100.00	76.36	7965
HSA-MIR-340-5P	100.00	72.50	4437
HSA-MIR-3120-5P	100.00	65.56	965
HSA-MIR-3646	100.00	73.56	5283
HSA-MIR-4282	99.99	75.36	6408
HSA-MIR-4789-3P	99.99	70.75	2484
HSA-MIR-371B-5P	99.99	75.34	4759
HSA-MIR-548AW	99.99	72.57	3559
HSA-MIR-4482-3P	99.98	72.50	3147
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-4775	99.98	75.00	6394
HSA-MIR-512-3P	99.97	67.35	1049
HSA-MIR-6888-3P	99.97	65.95	1170
HSA-MIR-651-3P	99.94	73.48	5177
HSA-MIR-3119	99.92	71.34	2390
HSA-MIR-5680	99.91	69.83	3421
HSA-MIR-1297	99.91	73.41	3162
HSA-MIR-6809-3P	99.91	71.45	3814
HSA-MIR-627-3P	99.90	71.42	3316
HSA-MIR-95-5P	99.89	72.17	3973
HSA-MIR-3065-3P	99.87	70.25	1407
HSA-MIR-579-3P	99.86	71.66	3628
HSA-MIR-664B-3P	99.84	71.65	3590
HSA-MIR-944	99.82	70.85	3042
HSA-MIR-489-3P	99.80	66.46	839
HSA-MIR-2052	99.79	69.37	2031

Cross-species orthologs

0 orthologs

Paralogs (176): ZNF195 (ENSG00000005801), ZNF112 (ENSG00000062370), ZNF275 (ENSG00000063587), ZNF37A (ENSG00000075407), ZNF510 (ENSG00000081386), ZNF506 (ENSG00000081665), ZNF268 (ENSG00000090612), MZF1 (ENSG00000099326), ZNF629 (ENSG00000102870), ZNF175 (ENSG00000105497), ZNF85 (ENSG00000105750), ZFP30 (ENSG00000120784), ZNF45 (ENSG00000124459), ZNF391 (ENSG00000124613), ZNF436 (ENSG00000125945), ZNF484 (ENSG00000127081), ZNF835 (ENSG00000127903), ZNF780B (ENSG00000128000), ZSCAN10 (ENSG00000130182), ZNF317 (ENSG00000130803), ZNF331 (ENSG00000130844), ZNF227 (ENSG00000131115), ZNF141 (ENSG00000131127), ZNF132 (ENSG00000131849), ZNF189 (ENSG00000136870), ZIM3 (ENSG00000141946), ZFP14 (ENSG00000142065), ZNF514 (ENSG00000144026), ZNF300 (ENSG00000145908), RBAK (ENSG00000146587), ZNF157 (ENSG00000147117), ZNF182 (ENSG00000147118), ZNF41 (ENSG00000147124), ZNF7 (ENSG00000147789), ZNF117 (ENSG00000152926), ZNF221 (ENSG00000159905), ZNF235 (ENSG00000159917), ZNF714 (ENSG00000160352), ZNF577 (ENSG00000161551), ZNF12 (ENSG00000164631)

Protein

Protein identifiers

Zinc finger protein 829 — Q3KNS6 (reviewed: Q3KNS6)

All UniProt accessions (1): Q3KNS6

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 (3)

UniProt ID	Names	Canonical?
Q3KNS6-1	1	yes
Q3KNS6-2	2
Q3KNS6-3	3

RefSeq proteins (2): NP_001032309, NP_001165450 (=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 (15 total): zinc finger region 10, splice variant 3, chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q3KNS6-F1	73.14	0.29

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 43 (showing top): MASSARWEH_TAMOXIFEN_RESISTANCE_UP, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, STK33_SKM_DN, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, RYBP_TARGET_GENES, ZBTB18_TARGET_GENES, ZNF30_TARGET_GENES, ZNF331_TARGET_GENES, ZNF350_TARGET_GENES, ZNF524_TARGET_GENES, ZNF577_TARGET_GENES, ZNF8_TARGET_GENES, ZSCAN31_TARGET_GENES, MIR340_5P, MIR95_5P

GO Biological Process (4): regulation of transcription by RNA polymerase II (GO:0006357), regulation of DNA-templated transcription (GO:0006355), regulation of macromolecule metabolic process (GO:0060255), regulation of primary metabolic process (GO:0080090)

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), 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 metabolic process	2
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
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
macromolecule metabolic process	1
primary metabolic process	1
cis-regulatory region sequence-specific DNA binding	1
chromatin	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

428 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF829	OR5L1	Q8NGL2	447
ZNF829	BLTP3B	A0JNW5	431
ZNF829	LEKR1	Q6ZMV7	400
ZNF829	PHYHD1	Q5SRE7	360
ZNF829	KCNRG	Q8N5I3	307
ZNF829	SH2D2A	Q9NP31	263
ZNF829	ATF7	P17544	254
ZNF829	LPCAT2	Q7L5N7	246
ZNF829	CCDC82	Q8N4S0	231
ZNF829	PBX2	P40425	230
ZNF829	MACROD2	A1Z1Q3	222
ZNF829	POU2F2	P09086	202
ZNF829	ARK2N	Q96B23	196
ZNF829	CAMTA1	Q9Y6Y1	192
ZNF829	TRIM13	O60858	188

IntAct

13 interactions, top by confidence:

A	B	Type	Score
TRIM28	ZNF316	psi-mi:“MI:0914”(association)	0.530
ZNF829	TRIM28	psi-mi:“MI:0914”(association)	0.530
STAT3	ZNF829	psi-mi:“MI:0915”(physical association)	0.490
APPL1	ZNF829	psi-mi:“MI:0915”(physical association)	0.490
ZNF829	ECE1	psi-mi:“MI:0915”(physical association)	0.370
ZNF829	SUV39H1	psi-mi:“MI:0915”(physical association)	0.370
KDM1A	ZNF829	psi-mi:“MI:0915”(physical association)	0.370
ZNF829	TRIM28	psi-mi:“MI:0914”(association)	0.350
CBX5	ZNF568	psi-mi:“MI:0914”(association)	0.350

BioGRID (27): TRIM28 (Affinity Capture-MS), AIM1 (Affinity Capture-MS), ZNF829 (Two-hybrid), ZNF829 (Two-hybrid), AIM1 (Affinity Capture-MS), TRIM28 (Affinity Capture-MS), ZNF829 (Two-hybrid), ZNF829 (Two-hybrid), ZNF829 (Two-hybrid), ZNF829 (Two-hybrid), CARD9 (Two-hybrid), ZNF587 (Two-hybrid), TLK1 (Two-hybrid), FBXO17 (Two-hybrid), ZNF829 (Affinity Capture-MS)

ESM2 similar proteins: A2RRD8, A6NHJ4, B4DX44, O75346, P10077, P10755, P15621, P16372, P16373, P51786, P52737, P85977, Q0VGE8, Q14588, Q147U1, Q15928, Q15973, Q2M3X9, Q3KNS6, Q3MIS6, Q494X3, Q5HY98, Q5RBQ3, Q5REK1, Q5VIY5, Q60585, Q61751, Q6GQR8, Q7L2R6, Q7TSH9, Q8IYX0, Q8N782, Q8N823, Q8N988, Q8N9F8, Q8NA42, Q8NCK3, Q8NDP4, Q8NEP9, Q8TC21

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

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	20
Likely benign	3
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

739 predictions. Top by Δscore:

Variant	Effect	Δscore
19:36908327:CCTTA:C	donor_loss	1.0000
19:36908328:CTTAC:C	donor_loss	1.0000
19:36908329:TTAC:T	donor_loss	1.0000
19:36908330:TA:T	donor_loss	1.0000
19:36908331:A:AG	donor_loss	1.0000
19:36908331:AC:A	donor_gain	1.0000
19:36908332:C:G	donor_loss	1.0000
19:36908332:CC:C	donor_gain	1.0000
19:36908332:CCCA:C	donor_gain	1.0000
19:36908335:A:AC	donor_gain	1.0000
19:36908336:C:CC	donor_gain	1.0000
19:36908371:T:TA	donor_gain	1.0000
19:36914961:ACACC:A	donor_loss	1.0000
19:36914962:CACC:C	donor_loss	1.0000
19:36915020:CAC:C	acceptor_gain	1.0000
19:36915023:C:CA	acceptor_loss	1.0000
19:36915033:G:C	acceptor_gain	1.0000
19:36915033:G:GC	acceptor_gain	1.0000
19:36892467:CAGAT:C	acceptor_gain	0.9900
19:36892468:AGATC:A	acceptor_loss	0.9900
19:36892469:GATCT:G	acceptor_loss	0.9900
19:36892470:ATCTG:A	acceptor_loss	0.9900
19:36892471:TCT:T	acceptor_loss	0.9900
19:36892472:C:CA	acceptor_loss	0.9900
19:36892472:C:CC	acceptor_gain	0.9900
19:36892473:T:G	acceptor_loss	0.9900
19:36907924:CTT:C	donor_loss	0.9900
19:36907926:TACCT:T	donor_loss	0.9900
19:36907927:A:C	donor_loss	0.9900
19:36907928:C:CA	donor_loss	0.9900

AlphaMissense

2896 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:36891540:A:C	F417L	0.993
19:36891540:A:T	F417L	0.993
19:36891542:A:G	F417L	0.993
19:36891624:A:C	F389L	0.993
19:36891624:A:T	F389L	0.993
19:36891626:A:G	F389L	0.993
19:36891876:A:C	F305L	0.993
19:36891876:A:T	F305L	0.993
19:36891878:A:G	F305L	0.993
19:36891960:A:C	F277L	0.991
19:36891960:A:T	F277L	0.991
19:36891962:A:G	F277L	0.991
19:36891607:A:G	L395P	0.986
19:36891595:T:G	Q399P	0.984
19:36891708:A:C	F361L	0.983
19:36891708:A:T	F361L	0.983
19:36891710:A:G	F361L	0.983
19:36892044:A:C	F249L	0.983
19:36892044:A:T	F249L	0.983
19:36892046:A:G	F249L	0.983
19:36891601:C:G	R397P	0.981
19:36891523:A:G	L423P	0.979
19:36891792:A:C	F333L	0.979
19:36891792:A:T	F333L	0.979
19:36891794:A:G	F333L	0.979
19:36892128:A:C	F221L	0.979
19:36892128:A:T	F221L	0.979
19:36892130:A:G	F221L	0.979
19:36891933:A:C	H286Q	0.978
19:36891933:A:T	H286Q	0.978

dbSNP variants (sampled 300 via entrez): RS1000199584 (19:36904097 C>T), RS1000306902 (19:36897797 A>G), RS1000366600 (19:36890588 C>G,T), RS1000415186 (19:36910837 T>C), RS1000440391 (19:36890854 T>C), RS1000680411 (19:36897565 T>C), RS1000693752 (19:36914366 T>A), RS1000843371 (19:36916961 C>G,T), RS1001085538 (19:36888437 C>G,T), RS1001221676 (19:36902856 T>A,C,G), RS1001382571 (19:36888910 C>T), RS1001388283 (19:36896725 T>C), RS1001394558 (19:36902382 C>T), RS1001453134 (19:36909542 C>G), RS1001850578 (19:36915121 A>G)

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

1 associations (top):

Study	Trait	p-value
GCST90002383_279	Hematocrit	5.000000e-10

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0004348	hematocrit

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

16 total (human), top 16 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
GSK-J4	decreases expression	1
triphenyl phosphate	affects expression	1
sodium arsenite	increases expression	1
di-n-butylphosphoric acid	affects expression	1
abrine	increases expression	1
Vorinostat	increases expression	1
Air Pollutants	affects expression, increases abundance	1
Benzo(a)pyrene	increases methylation	1
Cisplatin	increases expression	1
Ozone	affects expression, increases abundance	1
Silicon Dioxide	decreases expression	1
Tobacco Smoke Pollution	increases expression	1
Valproic Acid	decreases expression	1
Aflatoxin B1	decreases methylation	1
Cadmium Chloride	decreases expression	1
Particulate Matter	increases expression	1

Clinical trials (associated diseases)

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