ZNF665

Summary

ZNF665 (zinc finger protein 665, HGNC:25885) is a protein-coding gene on chromosome 19q13.42, encoding Zinc finger protein 665 (Q9H7R5). 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 79788 — RefSeq curated summary.

At a glance

• GWAS associations: 3
• Clinical variants (ClinVar): 127 total
• MANE Select transcript: NM_024733

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:25885
Approved symbol	ZNF665
Name	zinc finger protein 665
Location	19q13.42
Locus type	gene with protein product
Status	Approved
Aliases	FLJ14345, ZFP160L
Ensembl gene	ENSG00000197497
Ensembl biotype	protein_coding
Entrez	79788

Gene structure

Transcript identifiers

Ensembl transcripts: 11 — 7 protein_coding, 4 protein_coding_CDS_not_defined

ENST00000396424, ENST00000596373, ENST00000596564, ENST00000597544, ENST00000598440, ENST00000600412, ENST00000650736, ENST00000868912, ENST00000868913, ENST00000958707, ENST00000958708

RefSeq mRNA: 4 — MANE Select: NM_024733 NM_001353457, NM_001353458, NM_001353459, NM_024733

CCDS: CCDS46169

Canonical transcript exons

ENST00000396424 — 4 exons

Exon	Start	End
ENSE00002522516	53175445	53175571
ENSE00003097857	53162424	53166347
ENSE00003131003	53193312	53193358
ENSE00003572815	53182884	53182943

Expression profiles

Bgee: expression breadth ubiquitous, 255 present calls, max score 93.34.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 3.1438 / max 54.2742, expressed in 1239 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
182555	3.1438	1239

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
corpus epididymis	UBERON:0004359	93.34	gold quality
buccal mucosa cell	CL:0002336	93.30	gold quality
caput epididymis	UBERON:0004358	93.24	gold quality
cauda epididymis	UBERON:0004360	92.84	gold quality
medial globus pallidus	UBERON:0002477	90.98	gold quality
globus pallidus	UBERON:0001875	89.20	gold quality
pancreatic ductal cell	CL:0002079	89.07	gold quality
tendon of biceps brachii	UBERON:0008188	88.80	silver quality
postcentral gyrus	UBERON:0002581	88.20	gold quality
cartilage tissue	UBERON:0002418	88.07	silver quality
superficial temporal artery	UBERON:0001614	87.66	gold quality
bronchial epithelial cell	CL:0002328	87.30	gold quality
epithelial cell of pancreas	CL:0000083	87.07	silver quality
parietal lobe	UBERON:0001872	86.49	gold quality
olfactory bulb	UBERON:0002264	86.23	gold quality
adult organism	UBERON:0007023	86.15	gold quality
myocardium	UBERON:0002349	86.02	silver quality
heart right ventricle	UBERON:0002080	86.00	silver quality
diaphragm	UBERON:0001103	85.94	silver quality
oocyte	CL:0000023	85.86	gold quality
type B pancreatic cell	CL:0000169	85.72	silver quality
skin of hip	UBERON:0001554	85.70	gold quality
epithelium of bronchus	UBERON:0002031	85.31	gold quality
Brodmann (1909) area 46	UBERON:0006483	85.30	gold quality
bronchus	UBERON:0002185	85.10	gold quality
mammary duct	UBERON:0001765	85.00	gold quality
secondary oocyte	CL:0000655	84.94	gold quality
mammalian vulva	UBERON:0000997	84.61	silver quality
pigmented layer of retina	UBERON:0001782	84.49	gold quality
thymus	UBERON:0002370	84.09	silver quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-MTAB-8410	yes	19.58
E-ANND-3	no	5.72

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

48 targeting ZNF665, 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-513A-5P	100.00	69.77	2465
HSA-MIR-4531	99.99	69.70	3181
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-3065-5P	99.97	71.56	3281
HSA-MIR-590-3P	99.96	74.34	6478
HSA-MIR-6778-3P	99.96	67.29	2693
HSA-MIR-9983-3P	99.94	71.48	3631
HSA-MIR-95-5P	99.89	72.17	3973
HSA-MIR-6875-3P	99.82	70.26	2983
HSA-MIR-3913-3P	99.74	66.53	938
HSA-MIR-4306	99.72	70.50	3630
HSA-MIR-518A-5P	99.70	69.01	2209
HSA-MIR-527	99.70	69.01	2209
HSA-MIR-6516-3P	99.65	68.57	1238
HSA-MIR-4743-3P	99.62	68.12	2095
HSA-MIR-18A-3P	99.56	65.68	1092
HSA-MIR-190A-5P	99.54	71.45	933
HSA-MIR-190B-5P	99.54	71.40	925
HSA-MIR-7159-5P	99.53	72.12	2472
HSA-MIR-12131	99.48	68.72	1673
HSA-MIR-4728-3P	99.47	68.94	981
HSA-MIR-3123	99.47	67.15	2693
HSA-MIR-3182	99.40	68.15	2454
HSA-MIR-185-5P	99.35	68.60	2497
HSA-MIR-4644	99.35	69.12	2514
HSA-MIR-155-5P	99.35	70.16	1509
HSA-MIR-504-3P	99.30	67.18	1745
HSA-MIR-6504-3P	99.17	69.31	2891
HSA-MIR-7151-3P	99.04	69.72	2370
HSA-MIR-6074	98.89	69.64	2187

Cross-species orthologs

32 orthologs

Organism	Symbol	Gene ID
danio_rerio	znf646	ENSDARG00000061424
danio_rerio	si:dkey-154p10.3	ENSDARG00000068366
danio_rerio	si:dkey-89b17.4	ENSDARG00000075545
danio_rerio	zgc:66472	ENSDARG00000075916
danio_rerio	si:ch211-148l7.4	ENSDARG00000094469
danio_rerio	znf576.1	ENSDARG00000097819
mus_musculus	Zfp160	ENSMUSG00000067942
rattus_norvegicus	Zfp160	ENSRNOG00000059492
drosophila_melanogaster	Sry-delta	FBGN0003512
drosophila_melanogaster	az2	FBGN0025185
drosophila_melanogaster	hang	FBGN0026575
drosophila_melanogaster	CG3032	FBGN0029928
drosophila_melanogaster	CG2129	FBGN0030008
drosophila_melanogaster	CG11695	FBGN0030316
drosophila_melanogaster	CG8944	FBGN0030680
drosophila_melanogaster	CG7101	FBGN0030963
drosophila_melanogaster	CG1602	FBGN0033186
drosophila_melanogaster	CG18011	FBGN0033491
drosophila_melanogaster	CG12942	FBGN0033569
drosophila_melanogaster	CG8089	FBGN0033993
drosophila_melanogaster	indra	FBGN0035213
drosophila_melanogaster	CG10654	FBGN0036294
drosophila_melanogaster	CG6791	FBGN0037918
drosophila_melanogaster	CG17803	FBGN0038547
drosophila_melanogaster	CG12219	FBGN0043796
drosophila_melanogaster	CG30020	FBGN0050020
drosophila_melanogaster	pzg	FBGN0259785
drosophila_melanogaster	mld	FBGN0263490
drosophila_melanogaster	zf30C	FBGN0270924
caenorhabditis_elegans	ztf-15	WBGENE00011066
caenorhabditis_elegans		WBGENE00013734
caenorhabditis_elegans		WBGENE00015649

Paralogs (36): ZNF302 (ENSG00000089335), ZNF184 (ENSG00000096654), CTCF (ENSG00000102974), ZNF574 (ENSG00000105732), ZBTB24 (ENSG00000112365), ZNF142 (ENSG00000115568), CTCFL (ENSG00000124092), ZNF473 (ENSG00000142528), ZNF827 (ENSG00000151612), ZNF689 (ENSG00000156853), ZNF208 (ENSG00000160321), ZNF91 (ENSG00000167232), ZNF526 (ENSG00000167625), ZNF764 (ENSG00000169951), ZNF747 (ENSG00000169955), ZNF282 (ENSG00000170265), ZNF160 (ENSG00000170949), ZNF497 (ENSG00000174586), ZBTB34 (ENSG00000177125), ZNF771 (ENSG00000179965), ZNF48 (ENSG00000180035), ZNF594 (ENSG00000180626), ZBTB37 (ENSG00000185278), ZFP92 (ENSG00000189420), ZNF107 (ENSG00000196247), ZNF729 (ENSG00000196350), ZNF569 (ENSG00000196437), ZNF420 (ENSG00000197050), ZNF785 (ENSG00000197162), ZNF181 (ENSG00000197841), ZNF347 (ENSG00000197937), ZNF84 (ENSG00000198040), ZBTB48 (ENSG00000204859), ZNF845 (ENSG00000213799), ZNF99 (ENSG00000213973), ZNF688 (ENSG00000229809)

Protein

Protein identifiers

Zinc finger protein 665 — Q9H7R5 (reviewed: Q9H7R5)

Alternative names: Zinc finger protein 160-like

All UniProt accessions (2): A0A3Q5AD24, Q9H7R5

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 (4): NP_001340386, NP_001340387, NP_001340388, NP_079009* (*=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
IPR050331	Zinc_finger_PRDM4/PRDM1/PRDM14	Family

Pfam: PF00096, PF01352

UniProt features (24 total): zinc finger region 18, sequence variant 3, chain 1, domain 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9H7R5-F1	73.10	0.09

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 48 (showing top): GOCC_NUCLEOLUS, YOSHIMURA_MAPK8_TARGETS_UP, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, GOBP_NEGATIVE_REGULATION_OF_NUCLEOBASE_CONTAINING_COMPOUND_METABOLIC_PROCESS, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, MIR4306, MIR513A_5P, MIR190A_5P, MIR190B_5P, MIR215_3P, MIR96_3P, GSE13411_NAIVE_BCELL_VS_PLASMA_CELL_UP, GSE13411_IGM_MEMORY_BCELL_VS_PLASMA_CELL_UP, GSE1460_NAIVE_CD4_TCELL_ADULT_BLOOD_VS_THYMIC_STROMAL_CELL_UP, GSE15659_NAIVE_CD4_TCELL_VS_RESTING_TREG_DN

GO Biological Process (3): regulation of transcription by RNA polymerase II (GO:0006357), negative regulation of DNA-templated transcription (GO:0045892), regulation of DNA-templated transcription (GO:0006355)

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), sequence-specific DNA binding (GO:0043565), metal ion binding (GO:0046872)

GO Cellular Component (3): nucleus (GO:0005634), nucleolus (GO:0005730), microtubule cytoskeleton (GO:0015630)

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	2
DNA-templated transcription	2
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
transcription by RNA polymerase II	1
negative regulation of RNA biosynthetic process	1
regulation of gene expression	1
regulation of RNA biosynthetic 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
DNA binding	1
cation binding	1
intracellular membrane-bounded organelle	1
nuclear lumen	1
intracellular membraneless organelle	1
cytoskeleton	1

Protein interactions and networks

STRING

442 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF665	KRABD2	Q6ZNG9	431
ZNF665	TMEM74B	Q9NUR3	393
ZNF665	ARMH4	Q86TY3	366
ZNF665	RSKR	Q96LW2	360
ZNF665	SYDE2	Q5VT97	349
ZNF665	DENND4B	O75064	348
ZNF665	LRATD1	Q96KN4	327
ZNF665	RETREG3	Q86VR2	324
ZNF665	TTC36	A6NLP5	323
ZNF665	DUSP18	Q8NEJ0	322
ZNF665	RNF145	Q96MT1	314
ZNF665	KLHL5	Q96PQ7	308
ZNF665	N4BP2	Q86UW6	300
ZNF665	OTOGL	Q3ZCN5	296
ZNF665	TPTE2	Q6XPS3	287

IntAct

4 interactions, top by confidence:

A	B	Type	Score
NEK4	E2F8	psi-mi:“MI:0914”(association)	0.350
M		psi-mi:“MI:0914”(association)	0.350
ZNF665	pepP	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (2): ZNF665 (Affinity Capture-MS), ZNF665 (Proximity Label-MS)

ESM2 similar proteins: A2VDQ7, A6NNF4, A8MQ14, A8MTY0, E9QAG8, O75290, O75373, P08043, P0CJ79, P10751, P17017, P17027, P17039, P35789, P51522, P51523, Q08AN1, Q14585, Q14587, Q3SYV7, Q3ZCX4, Q4R4C7, Q52M93, Q5MCW4, Q5R5U3, Q5R8X1, Q5R9F0, Q5SXM1, Q6ECI4, Q6JLC9, Q6P3V2, Q6P5C7, Q6ZN57, Q86UE3, Q86XN6, Q86YE8, Q8C827, Q8IYB9, Q8N4W9, Q8N7M2

Diamond homologs: A0A1W2PQL4, A2RRD8, A2VDQ7, A6NHJ4, A6NK75, A6NN14, A6NNF4, A6NP11, B4DX44, B4DXR9, E9PW05, O14628, O43345, O75290, O75346, O75373, O75820, P0CB33, P0CJ79, P0DKX0, P10755, P17032, P17035, P52738, Q02386, Q03923, Q03936, Q05481, Q08AN1, Q09FC8, Q0VGE8, Q14586, Q14593, Q147U1, Q15928, Q3MIS6, Q3SXZ3, Q494X3, Q4R6C2, Q5HY98

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	109
Likely benign	13
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1403 predictions. Top by Δscore:

Variant	Effect	Δscore
19:53166344:ATATC:A	acceptor_loss	1.0000
19:53166347:TCTG:T	acceptor_loss	1.0000
19:53166348:C:CA	acceptor_loss	1.0000
19:53166349:T:A	acceptor_loss	1.0000
19:53175438:T:TA	donor_gain	1.0000
19:53175484:C:A	donor_gain	1.0000
19:53175567:TGTCC:T	acceptor_gain	1.0000
19:53175570:CC:C	acceptor_gain	1.0000
19:53175571:CC:C	acceptor_gain	1.0000
19:53175571:CCTAA:C	acceptor_loss	1.0000
19:53175572:C:CC	acceptor_gain	1.0000
19:53175572:CT:C	acceptor_loss	1.0000
19:53175573:T:G	acceptor_loss	1.0000
19:53166343:GATAT:G	acceptor_gain	0.9900
19:53166345:TAT:T	acceptor_gain	0.9900
19:53166348:C:CC	acceptor_gain	0.9900
19:53175440:CTCA:C	donor_loss	0.9900
19:53175441:TCACC:T	donor_loss	0.9900
19:53175442:CACCC:C	donor_loss	0.9900
19:53175443:AC:A	donor_gain	0.9900
19:53175444:C:CT	donor_loss	0.9900
19:53175444:CC:C	donor_gain	0.9900
19:53175460:T:TA	donor_gain	0.9900
19:53175483:T:TA	donor_gain	0.9900
19:53175568:GTCC:G	acceptor_gain	0.9900
19:53193310:A:AC	donor_gain	0.9900
19:53193311:C:CC	donor_gain	0.9900
19:53193311:CG:C	donor_gain	0.9900
19:53193311:CGCGG:C	donor_gain	0.9900
19:53166344:ATAT:A	acceptor_gain	0.9800

AlphaMissense

4518 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:53164585:G:C	F635L	0.998
19:53164585:G:T	F635L	0.998
19:53164587:A:G	F635L	0.998
19:53164669:G:C	F607L	0.998
19:53164669:G:T	F607L	0.998
19:53164671:A:G	F607L	0.998
19:53165173:A:C	F439L	0.997
19:53165173:A:T	F439L	0.997
19:53165175:A:G	F439L	0.997
19:53165341:G:C	F383L	0.997
19:53165341:G:T	F383L	0.997
19:53165343:A:G	F383L	0.997
19:53165509:A:C	F327L	0.997
19:53165509:A:T	F327L	0.997
19:53165511:A:G	F327L	0.997
19:53165593:G:C	F299L	0.997
19:53165593:G:T	F299L	0.997
19:53165595:A:G	F299L	0.997
19:53165677:A:C	F271L	0.997
19:53165677:A:T	F271L	0.997
19:53165679:A:G	F271L	0.997
19:53164501:A:C	F663L	0.996
19:53164501:A:T	F663L	0.996
19:53164503:A:G	F663L	0.996
19:53164753:A:C	F579L	0.996
19:53164753:A:T	F579L	0.996
19:53164755:A:G	F579L	0.996
19:53164921:A:C	F523L	0.996
19:53164921:A:T	F523L	0.996
19:53164923:A:G	F523L	0.996

dbSNP variants (sampled 300 via entrez): RS1000268467 (19:53191708 G>A), RS1000301168 (19:53191462 T>C), RS1000315901 (19:53179561 C>T), RS1000355836 (19:53192965 G>A), RS1000477979 (19:53171184 C>G), RS1000568432 (19:53167071 G>A), RS1000599231 (19:53192819 G>A), RS1000630286 (19:53192682 A>C), RS1000647140 (19:53181025 A>G), RS1000762290 (19:53185446 G>A), RS1000824442 (19:53194462 A>G), RS1000870151 (19:53175633 C>T), RS1000893437 (19:53193181 A>G), RS1000976715 (19:53189733 A>G), RS1001050502 (19:53169072 C>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
GCST001508_5	Asthma	4.000000e-06
GCST003026_6	Yu-Zhi constitution type in type 2 diabetes	5.000000e-06
GCST006298_5	Response to haloperidol in schizophrenia	7.000000e-06

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0007638	Yu-Zhi constitution type

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

11 total (human), top 11 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	increases expression, increases methylation, increases mutagenesis, affects methylation, decreases expression	4
Arsenic	affects methylation, increases methylation	2
Valproic Acid	decreases expression	2
GSK-J4	decreases expression	1
triphenyl phosphate	affects expression	1
arsenite	increases methylation	1
sodium arsenite	increases expression	1
di-n-butylphosphoric acid	affects expression	1
Sunitinib	increases expression	1
Tobacco Smoke Pollution	decreases expression	1
Vitamin E	decreases expression	1

Clinical trials (associated diseases)

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