SERTAD4

Summary

SERTAD4 (SERTA domain containing 4, HGNC:25236) is a protein-coding gene on chromosome 1q32.2, encoding SERTA domain-containing protein 4 (Q9NUC0).

Predicted to be located in nucleus.

Source: NCBI Gene 56256 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 64 total
• MANE Select transcript: NM_019605

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:25236
Approved symbol	SERTAD4
Name	SERTA domain containing 4
Location	1q32.2
Locus type	gene with protein product
Status	Approved
Aliases	DJ667H12.2
Ensembl gene	ENSG00000082497
Ensembl biotype	protein_coding
Entrez	56256

Gene structure

Transcript identifiers

Ensembl transcripts: 7 — 4 protein_coding, 3 protein_coding_CDS_not_defined

ENST00000367012, ENST00000482421, ENST00000483884, ENST00000490620, ENST00000933764, ENST00000946958, ENST00000946959

RefSeq mRNA: 3 — MANE Select: NM_019605 NM_001354173, NM_001375428, NM_019605

CCDS: CCDS1494

Canonical transcript exons

ENST00000367012 — 4 exons

Exon	Start	End
ENSE00001443238	210241558	210246255
ENSE00001443240	210232796	210233011
ENSE00003545749	210237944	210238135
ENSE00003626378	210239493	210239608

Expression profiles

Bgee: expression breadth ubiquitous, 167 present calls, max score 89.20.

FANTOM5 (CAGE): breadth broad, TPM avg 2.8481 / max 144.0455, expressed in 887 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
8383	1.6207	545
8386	0.3739	145
8382	0.3404	203
8384	0.3273	171
8385	0.1858	80

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
calcaneal tendon	UBERON:0003701	89.20	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	85.05	gold quality
smooth muscle tissue	UBERON:0001135	80.80	gold quality
minor salivary gland	UBERON:0001830	79.67	gold quality
saliva-secreting gland	UBERON:0001044	79.20	gold quality
parotid gland	UBERON:0001831	78.12	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	78.06	gold quality
descending thoracic aorta	UBERON:0002345	77.94	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	77.88	gold quality
mouth mucosa	UBERON:0003729	77.39	gold quality
ganglionic eminence	UBERON:0004023	77.37	gold quality
ventricular zone	UBERON:0003053	77.36	gold quality
tendon	UBERON:0000043	77.26	gold quality
esophagus mucosa	UBERON:0002469	75.96	gold quality
apex of heart	UBERON:0002098	75.87	gold quality
thoracic aorta	UBERON:0001515	75.40	gold quality
ascending aorta	UBERON:0001496	75.23	gold quality
muscle layer of sigmoid colon	UBERON:0035805	74.94	gold quality
skin of leg	UBERON:0001511	74.79	gold quality
right coronary artery	UBERON:0001625	74.33	gold quality
nasal cavity mucosa	UBERON:0001826	74.32	gold quality
rectum	UBERON:0001052	74.05	gold quality
body of uterus	UBERON:0009853	73.48	gold quality
colonic epithelium	UBERON:0000397	73.10	gold quality
skin of abdomen	UBERON:0001416	72.97	gold quality
prefrontal cortex	UBERON:0000451	72.51	gold quality
zone of skin	UBERON:0000014	72.36	gold quality
left coronary artery	UBERON:0001626	72.10	gold quality
right atrium auricular region	UBERON:0006631	71.18	gold quality
right uterine tube	UBERON:0001302	70.66	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	2.34

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

79 targeting SERTAD4, 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-4673	100.00	66.64	1490
HSA-MIR-4668-3P	100.00	68.74	2635
HSA-MIR-3925-3P	100.00	69.95	1237
HSA-MIR-4282	99.99	75.36	6408
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-4645-5P	99.98	65.81	1284
HSA-MIR-548N	99.98	71.94	4170
HSA-MIR-8068	99.98	73.85	2376
HSA-MIR-590-3P	99.96	74.34	6478
HSA-MIR-493-5P	99.96	72.47	2382
HSA-LET-7C-3P	99.95	73.42	2862
HSA-MIR-3910	99.95	71.13	2227
HSA-MIR-335-3P	99.93	73.36	4958
HSA-MIR-8063	99.91	69.76	3146
HSA-MIR-124-3P	99.89	73.74	3043
HSA-MIR-506-3P	99.89	73.55	3057
HSA-MIR-182-5P	99.87	74.03	2589
HSA-LET-7A-2-3P	99.87	70.53	1921
HSA-MIR-4503	99.85	71.45	1869
HSA-LET-7G-3P	99.85	70.43	1929
HSA-MIR-4698	99.84	71.41	4303
HSA-MIR-1323	99.83	69.89	2471
HSA-MIR-4307	99.82	70.45	3374
HSA-MIR-577	99.78	69.13	2479
HSA-MIR-6885-3P	99.75	70.36	3187
HSA-MIR-548O-3P	99.74	69.30	2228
HSA-MIR-6752-3P	99.72	66.71	1587
HSA-MIR-3714	99.71	70.74	2671
HSA-MIR-4470	99.66	69.35	1767
HSA-MIR-9851-3P	99.63	69.68	1110

Literature-anchored findings (GeneRIF, showing 1)

• KRAS mutation promotes the colonization of Fusobacterium nucleatum in colorectal cancer by down-regulating SERTAD4. (PMID:39462261)

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
danio_rerio	sertad4	ENSDARG00000089795
mus_musculus	Sertad4	ENSMUSG00000016262
rattus_norvegicus	Sertad4	ENSRNOG00000060773
drosophila_melanogaster	CG2865	FBGN0023526

Protein

Protein identifiers

SERTA domain-containing protein 4 — Q9NUC0 (reviewed: Q9NUC0)

All UniProt accessions (1): Q9NUC0

RefSeq proteins (3): NP_001341102, NP_001362357, NP_062551* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR009263	SERTA_dom	Domain
IPR029708	SERTAD4	Family

Pfam: PF06031

UniProt features (8 total): region of interest 4, compositionally biased region 2, chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9NUC0-F1	52.58	0.10

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 170 (showing top): FXR_IR1_Q6, LHX3_01, GGGTGGRR_PAX4_03, WOTTON_RUNX_TARGETS_UP, SRF_Q5_01, GTGCCTT_MIR506, NKX62_Q2, CAGCAGG_MIR370, CCTGTGA_MIR513, WTGAAAT_UNKNOWN, SCHAEFFER_PROSTATE_DEVELOPMENT_48HR_UP, OCT1_06, OCT1_07, GATA1_03, HFH1_01

GO Biological Process (0):

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (1): nucleus (GO:0005634)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

672 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
SERTAD4	SERTAD1	Q9UHV2	700
SERTAD4	SERTAD3	Q9UJW9	643
SERTAD4	CDCA4	Q9BXL8	595
SERTAD4	SERTAD2	Q14140	549
SERTAD4	SYT14	Q8NB59	519
SERTAD4	GOLT1B	Q9Y3E0	488
SERTAD4	NBEAL1	Q6ZS30	446
SERTAD4	SACS	Q9NZJ4	446
SERTAD4	SLC30A1	Q9Y6M5	425
SERTAD4	ZBTB44	Q8NCP5	424
SERTAD4	MRPL35	Q9NZE8	408
SERTAD4	CCDC3	Q9BQI4	405
SERTAD4	TMEM273	Q5T292	401
SERTAD4	RCOR3	Q9P2K3	392
SERTAD4	ANKRD66	B4E2M5	375

IntAct

33 interactions, top by confidence:

A	B	Type	Score
PPP2R2C	PPP2R1A	psi-mi:“MI:0914”(association)	0.730
SERTAD4	PPP2R1A	psi-mi:“MI:0914”(association)	0.730
PPP2R2D	YEATS4	psi-mi:“MI:0914”(association)	0.730
PPP2R2B	MYO9A	psi-mi:“MI:0914”(association)	0.640
PPP2R2D	ENSA	psi-mi:“MI:0914”(association)	0.570
FKBP1A	SERTAD4	psi-mi:“MI:0915”(physical association)	0.560
HSPA2	SERTAD4	psi-mi:“MI:0915”(physical association)	0.560
SARS1	SERTAD4	psi-mi:“MI:0915”(physical association)	0.560
SERTAD4	POTEF	psi-mi:“MI:0914”(association)	0.530
PPP2R1A	ENSA	psi-mi:“MI:0914”(association)	0.530
PPP2R2B	DDX3X	psi-mi:“MI:0914”(association)	0.460
SERTAD4	BCAP31	psi-mi:“MI:0915”(physical association)	0.400
AKT1	SERTAD4	psi-mi:“MI:0915”(physical association)	0.400
PPP2R2A	ENSA	psi-mi:“MI:0914”(association)	0.350
PPP2R2C	IER5	psi-mi:“MI:0914”(association)	0.350
PPP2R1A	STRN	psi-mi:“MI:0914”(association)	0.350
CBLL2	SRSF10	psi-mi:“MI:0914”(association)	0.350
PPP2R2C	TCP1	psi-mi:“MI:0914”(association)	0.350
PPP2R2B	A2ML1	psi-mi:“MI:0914”(association)	0.350
CRY2	PER2	psi-mi:“MI:0914”(association)	0.350
PPP2R2B	ARHGAP10	psi-mi:“MI:0914”(association)	0.350

BioGRID (47): POTEF (Affinity Capture-MS), ZFP1 (Affinity Capture-MS), PPP2R1B (Affinity Capture-MS), PPP2R1A (Affinity Capture-MS), PPP2R2D (Affinity Capture-MS), PPP2R2A (Affinity Capture-MS), PPP2CA (Affinity Capture-MS), PPP2CB (Affinity Capture-MS), SERTAD4 (Affinity Capture-MS), SERTAD4 (Affinity Capture-MS), SERTAD4 (Affinity Capture-MS), PPP2R2D (Affinity Capture-MS), SERTAD4 (Affinity Capture-MS), ZFP1 (Affinity Capture-MS), PPP2CA (Affinity Capture-MS)

ESM2 similar proteins: A2VCZ5, A5WWA0, A7DTG3, A9L937, A9ZPC9, B0VXK3, D3Z3C6, D3Z987, O42365, O42367, O43364, P31245, P31246, Q03172, Q06924, Q08727, Q0VCS4, Q15583, Q1EHW4, Q1KKT0, Q1KKT2, Q1KKV1, Q1KKV3, Q1KKZ4, Q1KL11, Q28DZ0, Q32LN6, Q4V7J0, Q5IS58, Q5RD08, Q5SWW4, Q5T0L3, Q6GQU0, Q6PE65, Q80U59, Q80YD3, Q86XD8, Q8AWY2, Q8BG36, Q8S9L0

Diamond homologs: A7DTG3, Q9NUC0

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	54
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

563 predictions. Top by Δscore:

Variant	Effect	Δscore
1:210233008:CGCGG:C	donor_loss	1.0000
1:210233009:GCG:G	donor_gain	1.0000
1:210233012:G:GA	donor_loss	1.0000
1:210233012:G:GG	donor_gain	1.0000
1:210233013:T:A	donor_loss	1.0000
1:210239609:G:GG	donor_gain	1.0000
1:210233007:CCGCG:C	donor_gain	0.9900
1:210233008:CGCG:C	donor_gain	0.9900
1:210233009:GCGG:G	donor_gain	0.9900
1:210233010:CG:C	donor_gain	0.9900
1:210233011:GG:G	donor_gain	0.9900
1:210237941:CA:C	acceptor_loss	0.9900
1:210237942:A:AG	acceptor_gain	0.9900
1:210237942:A:AT	acceptor_loss	0.9900
1:210237943:G:GG	acceptor_gain	0.9900
1:210237943:GATCT:G	acceptor_gain	0.9900
1:210238059:C:G	donor_gain	0.9900
1:210238105:G:GT	donor_gain	0.9900
1:210237943:GAT:G	acceptor_gain	0.9800
1:210238133:CAGGT:C	donor_loss	0.9800
1:210238134:AG:A	donor_loss	0.9800
1:210238135:GGTA:G	donor_loss	0.9800
1:210238136:G:GA	donor_loss	0.9800
1:210238137:T:G	donor_loss	0.9800
1:210239595:GCT:G	donor_gain	0.9800
1:210242324:G:GT	donor_gain	0.9800
1:210241548:T:A	acceptor_gain	0.9700
1:210242380:G:GG	donor_gain	0.9700
1:210238009:G:GT	donor_gain	0.9600
1:210239840:A:AG	donor_gain	0.9600

AlphaMissense

2341 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
1:210241613:T:C	L116P	1.000
1:210241643:T:C	L126P	1.000
1:210241655:T:A	V130D	1.000
1:210241658:T:C	L131P	1.000
1:210241628:A:G	D121G	0.999
1:210241643:T:A	L126H	0.999
1:210241649:G:C	R128T	0.999
1:210241649:G:T	R128I	0.999
1:210241650:A:C	R128S	0.999
1:210241650:A:T	R128S	0.999
1:210241651:T:C	S129P	0.999
1:210241658:T:A	L131H	0.999
1:210241661:T:A	I132K	0.999
1:210241668:T:A	N134K	0.999
1:210241668:T:G	N134K	0.999
1:210241592:T:C	L109P	0.998
1:210241600:T:C	S112P	0.998
1:210241646:G:C	R127P	0.998
1:210241665:C:A	N133K	0.998
1:210241665:C:G	N133K	0.998
1:210239551:G:C	K78N	0.997
1:210239551:G:T	K78N	0.997
1:210241609:A:G	K115E	0.997
1:210241611:G:C	K115N	0.997
1:210241611:G:T	K115N	0.997
1:210241631:C:A	P122H	0.997
1:210241661:T:G	I132R	0.997
1:210241664:A:T	N133I	0.997
1:210241666:A:G	N134D	0.997
1:210241670:T:C	L135S	0.997

dbSNP variants (sampled 300 via entrez): RS1000007696 (1:210245529 A>G), RS1000040339 (1:210245835 C>T), RS1000218512 (1:210239002 GA>G,GAA), RS1000315699 (1:210233107 C>G), RS1000507934 (1:210240526 A>C), RS1000614631 (1:210233263 C>G), RS1000638866 (1:210234336 G>A), RS1000870762 (1:210245941 T>A), RS1000906504 (1:210239991 C>G), RS1000923111 (1:210245732 G>A), RS1001728456 (1:210240928 A>G), RS1002210087 (1:210242499 T>C), RS1002311664 (1:210235857 T>C), RS1002498133 (1:210243829 T>C), RS1002558608 (1:210237201 G>A,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

2 associations (top):

Study	Trait	p-value
GCST004866_6	Alopecia areata	2.000000e-06
GCST007327_39	Smoking status (ever vs never smokers)	8.000000e-09

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0004318	smoking behavior

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

52 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, increases expression, affects expression, decreases expression, decreases methylation	8
Tobacco Smoke Pollution	decreases expression	3
Tretinoin	decreases expression	3
bisphenol A	affects methylation, affects cotreatment, increases methylation, decreases expression	2
perfluorooctane sulfonic acid	decreases expression, increases expression	2
(+)-JQ1 compound	decreases expression	2
Air Pollutants	decreases expression, increases abundance	2
Cisplatin	affects expression, affects cotreatment, decreases expression	2
Nickel	decreases expression	2
Smoke	increases expression, decreases expression	2
Particulate Matter	decreases expression, increases abundance	2
2,5,2’,5’-tetrachlorobiphenyl	decreases expression	1
ethyl-p-hydroxybenzoate	increases expression	1
trichostatin A	increases expression	1
sodium arsenite	decreases expression	1
perfluorooctanoic acid	increases expression	1
tobacco tar	decreases expression	1
entinostat	affects cotreatment, decreases expression	1
monomethylarsonous acid	decreases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression, increases expression	1
perfluorohexanesulfonic acid	increases expression	1
dorsomorphin	affects cotreatment, decreases expression, increases expression	1
jinfukang	affects cotreatment, decreases expression	1
NSC668394	decreases expression	1
Resveratrol	affects cotreatment, decreases expression	1
Decitabine	affects expression	1
Zoledronic Acid	decreases expression	1
Fulvestrant	affects cotreatment, increases methylation	1
Vorinostat	increases expression	1
Acetaminophen	decreases expression	1

Clinical trials (associated diseases)

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