MORN3

Summary

MORN3 (MORN repeat containing 3, HGNC:29807) is a protein-coding gene on chromosome 12q24.31, encoding MORN repeat-containing protein 3 (Q6PF18). Assembles a suppression complex (suppresome) by tethering SIRT1 and MDM2 to regulate composite modifications of p53/TP53.

Enables protein-macromolecule adaptor activity. Involved in negative regulation of signal transduction by p53 class mediator. Located in nucleus.

Source: NCBI Gene 283385 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 63 total
• MANE Select transcript: NM_173855

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:29807
Approved symbol	MORN3
Name	MORN repeat containing 3
Location	12q24.31
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000139714
Ensembl biotype	protein_coding
Entrez	283385

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 6 protein_coding, 2 nonsense_mediated_decay

ENST00000355329, ENST00000392462, ENST00000542364, ENST00000879182, ENST00000879183, ENST00000879184, ENST00000931069, ENST00000944504

RefSeq mRNA: 2 — MANE Select: NM_173855 NM_001363685, NM_173855

CCDS: CCDS31917

Canonical transcript exons

ENST00000355329 — 6 exons

Exon	Start	End
ENSE00000939814	121654274	121654433
ENSE00001036442	121659191	121659348
ENSE00001411960	121669339	121669654
ENSE00001412791	121653075	121653259
ENSE00002294122	121648742	121651644
ENSE00003534006	121652728	121652808

Expression profiles

Bgee: expression breadth ubiquitous, 164 present calls, max score 97.59.

FANTOM5 (CAGE): breadth broad, TPM avg 2.1514 / max 91.1192, expressed in 579 samples.

FANTOM5 promoters (6 alternative TSS)

Promoter ID	TPM avg	Samples expressed
133750	1.2202	476
133749	0.6705	117
133748	0.1113	21
133747	0.0865	26
133746	0.0407	20
133745	0.0222	9

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
sperm	CL:0000019	97.59	gold quality
left testis	UBERON:0004533	93.49	gold quality
right testis	UBERON:0004534	93.05	gold quality
testis	UBERON:0000473	89.70	gold quality
bronchial epithelial cell	CL:0002328	89.38	gold quality
bronchus	UBERON:0002185	88.12	gold quality
right uterine tube	UBERON:0001302	84.13	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	82.10	gold quality
adult organism	UBERON:0007023	81.75	gold quality
skeletal muscle tissue of rectus abdominis	UBERON:0004511	79.60	gold quality
buccal mucosa cell	CL:0002336	79.47	gold quality
upper arm skin	UBERON:0004263	78.81	gold quality
tendon of biceps brachii	UBERON:0008188	77.15	silver quality
mucosa of paranasal sinus	UBERON:0005030	76.04	silver quality
cortical plate	UBERON:0005343	75.48	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	75.20	gold quality
epithelial cell of pancreas	CL:0000083	74.64	gold quality
cardiac muscle of right atrium	UBERON:0003379	74.05	gold quality
left ventricle myocardium	UBERON:0006566	73.88	gold quality
prefrontal cortex	UBERON:0000451	73.83	gold quality
epithelium of nasopharynx	UBERON:0001951	73.63	gold quality
nasal cavity mucosa	UBERON:0001826	73.48	gold quality
stromal cell of endometrium	CL:0002255	71.71	gold quality
granulocyte	CL:0000094	71.69	gold quality
myocardium	UBERON:0002349	71.47	gold quality
nasal cavity epithelium	UBERON:0005384	71.02	gold quality
placenta	UBERON:0001987	70.55	gold quality
ventricular zone	UBERON:0003053	70.37	gold quality
quadriceps femoris	UBERON:0001377	69.86	gold quality
vastus lateralis	UBERON:0001379	69.68	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	5.28

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

11 targeting MORN3, 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-3667-3P	99.99	67.17	1636
HSA-MIR-4731-5P	99.89	67.23	2537
HSA-MIR-3919	99.87	69.45	2489
HSA-MIR-1255A	99.74	68.09	744
HSA-MIR-1255B-5P	99.74	68.16	741
HSA-MIR-6731-5P	99.28	67.42	2375
HSA-MIR-8085	99.28	67.56	2362
HSA-MIR-661	99.09	65.94	2062
HSA-MIR-4297	98.77	66.95	2013
HSA-MIR-31-5P	98.58	68.35	1239
HSA-MIR-1255B-2-3P	97.80	67.04	880

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
danio_rerio	morn3	ENSDARG00000021697
mus_musculus	Morn3	ENSMUSG00000029477
rattus_norvegicus	Morn3	ENSRNOG00000045574
drosophila_melanogaster	CG30429	FBGN0050429

Paralogs (7): MORN1 (ENSG00000116151), SETD7 (ENSG00000145391), RSPH10B (ENSG00000155026), RSPH1 (ENSG00000160188), RSPH10B2 (ENSG00000169402), ALS2CL (ENSG00000178038), MORN2 (ENSG00000188010)

Protein

Protein identifiers

MORN repeat-containing protein 3 — Q6PF18 (reviewed: Q6PF18)

All UniProt accessions (1): Q6PF18

UniProt curated annotations — full annotation on UniProt →

Function. Assembles a suppression complex (suppresome) by tethering SIRT1 and MDM2 to regulate composite modifications of p53/TP53. Confers both deacetylation-mediated functional inactivation, by SIRT1, and ubiquitination-dependent degradation, by MDM2, of p53/TP53, promoting a proliferative and cell survival behaviors. May play a role in the regulation of spermatogenesis.

Subunit / interactions. Interacts with MEIG1. Interacts with TP53, MDM2 and SIRT1; the interactions mediate post-transcriptional modifications of TP53 by MDM2 and SIRT1.

Subcellular location. Cytoplasmic vesicle. Secretory vesicle. Acrosome.

Isoforms (2)

UniProt ID	Names	Canonical?
Q6PF18-1	1	yes
Q6PF18-2	2

RefSeq proteins (2): NP_001350614, NP_776254* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR003409	MORN	Repeat
IPR052472	MORN3	Family

Pfam: PF02493

UniProt features (14 total): repeat 7, region of interest 3, splice variant 2, chain 1, sequence conflict 1

Structure

Experimental structures (PDB)

1 structures.

PDB	Method	Resolution (Å)
8J07	ELECTRON MICROSCOPY	4.1

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q6PF18-F1	92.56	0.79

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 46 (showing top): GOCC_SECRETORY_GRANULE, GOBP_NEGATIVE_REGULATION_OF_INTRACELLULAR_SIGNAL_TRANSDUCTION, SENGUPTA_NASOPHARYNGEAL_CARCINOMA_DN, GOBP_SIGNAL_TRANSDUCTION_BY_P53_CLASS_MEDIATOR, GOBP_REGULATION_OF_SIGNAL_TRANSDUCTION_BY_P53_CLASS_MEDIATOR, GOBP_NEGATIVE_REGULATION_OF_SIGNAL_TRANSDUCTION_BY_P53_CLASS_MEDIATOR, GOCC_SECRETORY_VESICLE, GOCC_ACROSOMAL_VESICLE, chr12q24, DODD_NASOPHARYNGEAL_CARCINOMA_DN, MARTENS_BOUND_BY_PML_RARA_FUSION, SRC_UP.V1_UP, GSE13522_CTRL_VS_T_CRUZI_Y_STRAIN_INF_SKIN_129_MOUSE_UP, MIR1255A_MIR1255B_5P, GSE10147_IL3_AND_HIVP17_VS_IL3_AND_CPG_STIM_PDC_UP

GO Biological Process (2): negative regulation of signal transduction by p53 class mediator (GO:1901797), signal transduction by p53 class mediator (GO:0072331)

GO Molecular Function (2): protein-macromolecule adaptor activity (GO:0030674), protein binding (GO:0005515)

GO Cellular Component (3): acrosomal vesicle (GO:0001669), nucleus (GO:0005634), cytoplasmic vesicle (GO:0031410)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
signal transduction by p53 class mediator	1
regulation of signal transduction by p53 class mediator	1
negative regulation of intracellular signal transduction	1
intracellular signal transduction	1
protein binding	1
molecular adaptor activity	1
binding	1
secretory granule	1
intracellular membrane-bounded organelle	1
cytoplasm	1
intracellular vesicle	1

Protein interactions and networks

STRING

752 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
MORN3	MORN5	Q5VZ52	709
MORN3	PACRG	Q96M98	575
MORN3	RIMBP3	Q9UFD9	575
MORN3	HOOK1	Q9UJC3	538
MORN3	KIF3B	O15066	493
MORN3	LRGUK	Q96M69	488
MORN3	SCP2	P22307	468
MORN3	EEF1E1	O43324	456
MORN3	CCNI2	Q6ZMN8	456
MORN3	TCFL5	Q9UL49	450
MORN3	LNPEP	Q9UIQ6	449
MORN3	CCDC148	Q8NFR7	449
MORN3	RSPH3	Q86UC2	446
MORN3	NOC2L	Q9Y3T9	442
MORN3	TMEM120B	A0PK00	433

IntAct

240 interactions, top by confidence:

A	B	Type	Score
GOLGA2	MORN3	psi-mi:“MI:0915”(physical association)	0.790
TRAF1	MORN3	psi-mi:“MI:0915”(physical association)	0.790
MORN3	GOLGA2	psi-mi:“MI:0915”(physical association)	0.790
MORN3	TRAF1	psi-mi:“MI:0915”(physical association)	0.790
MORN3	RSPH1	psi-mi:“MI:0915”(physical association)	0.780
IKZF3	MORN3	psi-mi:“MI:0915”(physical association)	0.780
RSPH1	MORN3	psi-mi:“MI:0915”(physical association)	0.780
MORN3	IKZF3	psi-mi:“MI:0915”(physical association)	0.780
MORN3	MAGEA6	psi-mi:“MI:0915”(physical association)	0.720
TRAF2	MORN3	psi-mi:“MI:0915”(physical association)	0.720

BioGRID (79): MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid), MORN3 (Two-hybrid)

ESM2 similar proteins: B6CZ17, B6CZ18, O00423, P10830, P53671, Q05BC3, Q08CH7, Q09537, Q15326, Q1XHL7, Q21029, Q28FE4, Q32KM6, Q32KU3, Q32LL6, Q49HM9, Q4R3N2, Q4R842, Q4V8C3, Q4VBJ9, Q502X0, Q569C2, Q5PPV3, Q5TYQ3, Q5VZ52, Q5ZIJ9, Q622Z7, Q63651, Q641X6, Q6GNY1, Q6IND7, Q6PF18, Q6VTH5, Q7DMA9, Q7Z0G7, Q804S5, Q80SY4, Q86YT6, Q8C5T4, Q8K4M9

Diamond homologs: Q32KM6, Q4R842, Q5PPV3, Q6PF18, Q8C5T4

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	44
Likely benign	3
Benign	2

Top pathogenic / likely-pathogenic (0)

SpliceAI

670 predictions. Top by Δscore:

Variant	Effect	Δscore
12:121652744:T:TA	donor_gain	1.0000
12:121654267:CACT:C	donor_loss	1.0000
12:121654270:TCA:T	donor_loss	1.0000
12:121654271:CAC:C	donor_loss	1.0000
12:121654272:A:AC	donor_gain	1.0000
12:121654272:A:T	donor_loss	1.0000
12:121654273:C:A	donor_loss	1.0000
12:121654273:C:CA	donor_gain	1.0000
12:121654273:CT:C	donor_gain	1.0000
12:121669335:TCAC:T	donor_loss	1.0000
12:121669336:CAC:C	donor_loss	1.0000
12:121669337:A:AC	donor_gain	1.0000
12:121669337:A:AG	donor_loss	1.0000
12:121669338:C:A	donor_loss	1.0000
12:121669338:C:CC	donor_gain	1.0000
12:121669338:CCGT:C	donor_gain	1.0000
12:121652754:T:TA	donor_gain	0.9900
12:121652808:CCTG:C	acceptor_loss	0.9900
12:121653102:AGGGG:A	donor_gain	0.9900
12:121654265:GGCAC:G	donor_loss	0.9900
12:121654266:GCACT:G	donor_loss	0.9900
12:121654268:ACTCA:A	donor_loss	0.9900
12:121654272:ACT:A	donor_gain	0.9900
12:121654273:CTC:C	donor_gain	0.9900
12:121654273:CTCA:C	donor_gain	0.9900
12:121654273:CTCAG:C	donor_gain	0.9900
12:121654292:C:CA	donor_gain	0.9900
12:121654293:C:A	donor_gain	0.9900
12:121654429:TAACC:T	acceptor_gain	0.9900
12:121654432:CC:C	acceptor_gain	0.9900

AlphaMissense

1597 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
12:121654316:A:G	W141R	0.978
12:121654316:A:T	W141R	0.978
12:121654354:C:G	R128P	0.978
12:121653247:C:G	R159P	0.970
12:121659211:A:G	W95R	0.961
12:121659211:A:T	W95R	0.961
12:121653161:A:G	W188R	0.960
12:121653161:A:T	W188R	0.960
12:121669360:A:G	W42R	0.954
12:121669360:A:T	W42R	0.954
12:121654321:C:T	G139E	0.945
12:121654357:C:T	G127D	0.942
12:121659270:C:T	G75D	0.942
12:121654314:C:A	W141C	0.941
12:121654314:C:G	W141C	0.941
12:121654427:C:A	G104W	0.940
12:121659209:C:A	W95C	0.940
12:121659209:C:G	W95C	0.940
12:121659304:C:A	G64W	0.940
12:121653233:A:G	W164R	0.939
12:121653233:A:T	W164R	0.939
12:121654391:C:G	G116R	0.939
12:121659298:A:G	W66R	0.939
12:121659298:A:T	W66R	0.939
12:121654322:C:G	G139R	0.938
12:121654322:C:T	G139R	0.938
12:121653239:C:G	G162R	0.935
12:121653175:A:G	L183P	0.933
12:121654315:C:G	W141S	0.932
12:121654426:C:T	G104E	0.932

dbSNP variants (sampled 300 via entrez): RS1000121670 (12:121652093 G>A), RS1000124103 (12:121670041 T>C), RS1000136023 (12:121662580 C>A,G,T), RS1000178381 (12:121665747 A>C), RS1000230726 (12:121665393 C>G), RS1000246464 (12:121668689 G>A), RS1000250885 (12:121668402 G>A,C), RS1000359393 (12:121659482 C>T), RS1000440800 (12:121674148 G>A), RS1000519226 (12:121667252 G>A), RS1000581056 (12:121660840 G>C,T), RS1000904295 (12:121651418 C>T), RS1000970157 (12:121658358 G>A,C), RS1001129430 (12:121661395 A>G), RS1001247467 (12:121667762 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

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
Air Pollutants	decreases expression, increases abundance, increases expression	2
Estradiol	affects cotreatment, decreases expression	2
Valproic Acid	affects cotreatment, increases expression	2
aristolochic acid I	increases expression	1
sotorasib	affects cotreatment, decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	decreases methylation	1
S-(1,2-dichlorovinyl)cysteine	increases expression	1
CGP 52608	affects binding, increases reaction	1
2-palmitoylglycerol	increases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, increases expression	1
dorsomorphin	increases expression, affects cotreatment	1
trametinib	affects cotreatment, decreases expression	1
NVP-BKM120	affects cotreatment, decreases expression	1
theaflavin-3,3’-digallate	affects expression	1
Arsenic	affects methylation	1
Smoke	increases abundance, increases expression	1
Tobacco Smoke Pollution	decreases expression	1
Aflatoxin B1	increases methylation	1
Genistein	increases expression	1
S-Nitrosoglutathione	increases expression	1

Clinical trials (associated diseases)

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