ZNF676

Summary

ZNF676 (zinc finger protein 676, HGNC:20429) is a protein-coding gene on chromosome 19p12, encoding Zinc finger protein 676 (Q8N7Q3). 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 DNA-templated transcription. Predicted to be located in nucleus.

Source: NCBI Gene 163223 — RefSeq curated summary.

At a glance

• GWAS associations: 3
• Clinical variants (ClinVar): 108 total
• MANE Select transcript: NM_001001411

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:20429
Approved symbol	ZNF676
Name	zinc finger protein 676
Location	19p12
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000196109
Ensembl biotype	protein_coding
Entrez	163223

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 3 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000397121, ENST00000650058, ENST00000651839, ENST00000904872

RefSeq mRNA: 1 — MANE Select: NM_001001411 NM_001001411

CCDS: CCDS42539

Canonical transcript exons

ENST00000395385 — 0 exons

Expression profiles

Bgee: expression breadth ubiquitous, 119 present calls, max score 83.06.

FANTOM5 (CAGE): breadth broad, TPM avg 0.8813 / max 456.5353, expressed in 185 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
180249	0.8034	180
180248	0.0779	29

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	83.06	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	80.86	gold quality
thyroid gland	UBERON:0002046	70.35	gold quality
left lobe of thyroid gland	UBERON:0001120	69.48	gold quality
right uterine tube	UBERON:0001302	69.28	gold quality
right lobe of thyroid gland	UBERON:0001119	68.59	gold quality
smooth muscle tissue	UBERON:0001135	67.94	gold quality
islet of Langerhans	UBERON:0000006	66.92	gold quality
left coronary artery	UBERON:0001626	66.74	gold quality
heart left ventricle	UBERON:0002084	66.69	gold quality
right coronary artery	UBERON:0001625	66.67	gold quality
heart	UBERON:0000948	66.42	gold quality
apex of heart	UBERON:0002098	66.26	gold quality
descending thoracic aorta	UBERON:0002345	66.08	gold quality
body of uterus	UBERON:0009853	66.07	gold quality
right atrium auricular region	UBERON:0006631	65.95	gold quality
ascending aorta	UBERON:0001496	65.68	gold quality
thoracic aorta	UBERON:0001515	65.68	gold quality
testis	UBERON:0000473	65.57	gold quality
fallopian tube	UBERON:0003889	65.24	gold quality
omental fat pad	UBERON:0010414	64.82	gold quality
pancreas	UBERON:0001264	64.76	gold quality
calcaneal tendon	UBERON:0003701	64.29	gold quality
myometrium	UBERON:0001296	63.90	gold quality
body of pancreas	UBERON:0001150	63.87	gold quality
left testis	UBERON:0004533	63.84	gold quality
right testis	UBERON:0004534	63.77	gold quality
left uterine tube	UBERON:0001303	63.42	gold quality
lower esophagus muscularis layer	UBERON:0035833	63.24	gold quality
lower esophagus	UBERON:0013473	63.21	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-MTAB-6142	no	10.07
E-ANND-3	no	2.21

Regulation

Is transcription factor: yes

JASPAR motifs

Motif	Name	Family
MA2569.1	ZNF676	More than 3 adjacent zinc fingers

JASPAR matrix evidence (PMIDs): PMID:39605368

miRNA regulators (miRDB)

74 targeting ZNF676, 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-3925-3P	100.00	69.95	1237
HSA-MIR-6833-3P	100.00	70.63	3197
HSA-MIR-4768-5P	100.00	69.49	2861
HSA-MIR-3064-3P	100.00	70.09	1254
HSA-MIR-6873-3P	100.00	71.42	2626
HSA-MIR-4776-3P	100.00	68.73	1340
HSA-MIR-188-3P	100.00	68.76	1240
HSA-MIR-1252-5P	100.00	69.80	2774
HSA-MIR-656-3P	100.00	72.15	2788
HSA-MIR-12121	99.99	66.64	255
HSA-MIR-511-3P	99.99	68.85	1467
HSA-MIR-4715-3P	99.98	66.03	670
HSA-MIR-548AN	99.97	70.91	2817
HSA-MIR-146A-5P	99.96	68.93	988
HSA-MIR-146B-5P	99.96	69.13	977
HSA-MIR-23A-3P	99.95	74.24	3163
HSA-MIR-23B-3P	99.95	74.24	3163
HSA-MIR-23C	99.95	73.92	3192
HSA-MIR-6845-3P	99.94	66.88	1439
HSA-MIR-7153-5P	99.94	68.89	1006
HSA-MIR-6809-3P	99.91	71.45	3814
HSA-MIR-7162-3P	99.89	68.16	1682
HSA-MIR-548E-5P	99.89	72.73	4486
HSA-MIR-200A-5P	99.76	69.10	949
HSA-MIR-200B-5P	99.76	69.05	948
HSA-MIR-4755-5P	99.71	70.34	2716
HSA-MIR-5006-3P	99.71	70.26	2728
HSA-MIR-580-3P	99.67	69.23	1841
HSA-MIR-10393-5P	99.65	68.01	1368
HSA-MIR-1251-3P	99.64	67.21	1408

Literature-anchored findings (GeneRIF, showing 2)

• Genome-wide meta-analysis points to CTC1 and ZNF676 as genes regulating telomere homeostasis in humans. (PMID:23001564)
• Transcriptome wide association study results identified two novel genes as statistically significantly associated with nonobstructive azoospermia susceptibility: PILRA and ZNF676. (PMID:29202958)

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 676 — Q8N7Q3 (reviewed: Q8N7Q3)

All UniProt accessions (2): Q8N7Q3, A0A3B3ITU2

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_001001411* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001909	KRAB	Domain
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR050758	Znf_C2H2-type	Family

Pfam: PF00096, PF13465

UniProt features (23 total): zinc finger region 15, sequence variant 3, sequence conflict 3, chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8N7Q3-F1	72.69	0.24

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 42 (showing top): chr19p12, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, ZWANG_TRANSIENTLY_UP_BY_2ND_EGF_PULSE_ONLY, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, MIR23A_3P_MIR23B_3P, MIR23C, MIR6809_3P, MIR6833_3P, MIR6873_3P, MIR4768_5P, MIR892C_5P, MIR3925_3P, MIR3064_3P, MIR511_3P, MIR4776_3P

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

GO Molecular Function (5): 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), 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
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
regulation of DNA-templated transcription	1
transcription by RNA polymerase II	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
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

322 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF676	CTC1	Q2NKJ3	697
ZNF676	DHX35	Q9H5Z1	667
ZNF676	ACYP2	P14621	667
ZNF676	STN1	Q9H668	663
ZNF676	PXK	Q7Z7A4	604
ZNF676	ALG1L2	C9J202	576
ZNF676	DCAF4	Q8WV16	571
ZNF676	OR2G6	Q5TZ20	474
ZNF676	METTL21C	Q5VZV1	465
ZNF676	TERT	O14746	446
ZNF676	MEIS3	Q99687	443
ZNF676	RTEL1	Q9NZ71	436
ZNF676	CFAP57	Q96MR6	418
ZNF676	DNAH11	Q96DT5	409
ZNF676	A0A087WVV2	A0A087WVV2	399

IntAct

3 interactions, top by confidence:

A	B	Type	Score
ECE1	ZNF676	psi-mi:“MI:0915”(physical association)	0.370
TP63	HNRNPR	psi-mi:“MI:0914”(association)	0.350

BioGRID (1): ZNF676 (Affinity Capture-MS)

ESM2 similar proteins: A2VDQ7, A6NK75, A6NN14, A6NNF4, A8MQ14, A8MTY0, A8MXY4, B7Z6K7, E9QAG8, O43345, O75290, O75373, O75437, P0CJ79, P10751, P17017, P17019, P17035, P17038, P18749, P35789, P51522, Q03923, Q03938, Q05481, Q14585, Q3SYV7, Q4V348, Q5R5U3, Q5R8X1, Q5R9F0, Q5SXM1, Q6P5C7, Q6ZN08, Q6ZN57, Q6ZR52, Q86V71, Q86XN6, Q8IYB9, Q8N7Q3

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

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	87
Likely benign	11
Benign	1

Top pathogenic / likely-pathogenic (0)

SpliceAI

498 predictions. Top by Δscore:

Variant	Effect	Δscore
19:22196430:AGGAC:A	donor_gain	1.0000
19:22181582:TATAA:T	acceptor_gain	0.9900
19:22181584:TAA:T	acceptor_gain	0.9900
19:22181587:C:CC	acceptor_gain	0.9900
19:22181583:ATAA:A	acceptor_gain	0.9800
19:22181584:TAAC:T	acceptor_loss	0.9700
19:22181587:CT:C	acceptor_loss	0.9700
19:22181588:T:C	acceptor_loss	0.9700
19:22193107:AATAC:A	acceptor_loss	0.9600
19:22193108:ATACC:A	acceptor_loss	0.9600
19:22193109:TACCT:T	acceptor_loss	0.9600
19:22193110:ACCT:A	acceptor_loss	0.9600
19:22193111:CC:C	acceptor_loss	0.9600
19:22193113:T:C	acceptor_loss	0.9600
19:22196598:AC:A	donor_gain	0.9600
19:22196599:CC:C	donor_gain	0.9600
19:22196639:T:A	donor_gain	0.9600
19:22193114:G:C	acceptor_loss	0.9500
19:22196429:CAGG:C	donor_gain	0.9500
19:22196430:AGGA:A	donor_gain	0.9500
19:22196592:ATTCT:A	donor_loss	0.9400
19:22196594:TCTCA:T	donor_loss	0.9400
19:22196595:CTCAC:C	donor_loss	0.9400
19:22196596:T:TA	donor_loss	0.9400
19:22196597:CA:C	donor_loss	0.9400
19:22196599:C:G	donor_loss	0.9400
19:22181585:AA:A	acceptor_gain	0.9300
19:22193010:ACCT:A	donor_loss	0.9300
19:22193011:CCTA:C	donor_loss	0.9300
19:22193012:CTAC:C	donor_loss	0.9300

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000013190 (19:22244216 G>A), RS1000077987 (19:22208440 A>G), RS1000151155 (19:22208208 G>T), RS1000161076 (19:22253059 C>A), RS1000187492 (19:22213981 T>A,C,G), RS1000222285 (19:22209325 A>C,G,T), RS1000261703 (19:22248985 C>T), RS1000276452 (19:22252787 A>G), RS1000351697 (19:22218644 G>A,T), RS1000360572 (19:22258083 G>C), RS1000365660 (19:22183439 G>A), RS1000380326 (19:22254462 A>T), RS1000428774 (19:22260064 G>C,T), RS1000489110 (19:22244095 G>A,C), RS1000501492 (19:22254429 G>T)

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

3 associations (top):

Study	Trait	p-value
GCST000669_1	Telomere length	2.000000e-06
GCST001697_1	Telomere length	1.000000e-08
GCST008554_7	Atorvastatin-induced myopathy	3.000000e-06

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

18 total (human), top 18 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
enzacamene	decreases expression	1
pentanal	decreases expression	1
Resveratrol	affects cotreatment, decreases expression	1
Amiodarone	increases expression	1
Copper	affects cotreatment, decreases expression	1
Dimethoate	increases expression	1
Endosulfan	decreases expression	1
Estradiol	increases expression	1
Iopanoic Acid	increases expression	1
Methimazole	increases expression	1
Methoxychlor	increases expression	1
Methylmercury Compounds	increases expression	1
Propylthiouracil	increases expression	1
Tetrachlorodibenzodioxin	decreases expression	1
Triiodothyronine	decreases expression, increases expression	1
Aflatoxin B1	increases expression	1
Cadmium Chloride	increases expression	1
Iodoacetic Acid	decreases expression	1

Clinical trials (associated diseases)

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