TEX9

Summary

TEX9 (testis expressed 9, HGNC:29585) is a protein-coding gene on chromosome 15q21.3, encoding Testis-expressed protein 9 (Q8N6V9).

Located in centriolar satellite.

Source: NCBI Gene 374618 — RefSeq curated summary.

At a glance

• GWAS associations: 24
• Clinical variants (ClinVar): 83 total
• MANE Select transcript: NM_001395496

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:29585
Approved symbol	TEX9
Name	testis expressed 9
Location	15q21.3
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000151575
Ensembl biotype	protein_coding
OMIM	620935
Entrez	374618

Gene structure

Transcript identifiers

Ensembl transcripts: 17 — 12 protein_coding, 3 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined, 1 retained_intron

ENST00000352903, ENST00000537232, ENST00000558083, ENST00000558127, ENST00000559142, ENST00000559546, ENST00000560582, ENST00000560827, ENST00000561221, ENST00000696102, ENST00000876251, ENST00000876252, ENST00000876253, ENST00000931689, ENST00000931690, ENST00000956901, ENST00000956902

RefSeq mRNA: 16 — MANE Select: NM_001395496 NM_001286449, NM_001385040, NM_001385041, NM_001385042, NM_001385043, NM_001385044, NM_001385045, NM_001385046, NM_001385047, NM_001385048, NM_001385049, NM_001385050, NM_001385051, NM_001385052, NM_001395496, NM_198524

CCDS: CCDS10157, CCDS66776

Canonical transcript exons

ENST00000696102 — 12 exons

Exon	Start	End
ENSE00001103352	56389318	56389400
ENSE00001183753	56388472	56388520
ENSE00002548195	56391243	56391418
ENSE00003965995	56412302	56412436
ENSE00003965997	56428367	56430154
ENSE00003965998	56365426	56365477
ENSE00003965999	56383952	56384031
ENSE00003966000	56427605	56427739
ENSE00003966002	56365579	56365670
ENSE00003966003	56373441	56373504
ENSE00003966005	56394661	56394834
ENSE00003966006	56394165	56394247

Expression profiles

Bgee: expression breadth ubiquitous, 192 present calls, max score 94.91.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 5.5030 / max 161.5657, expressed in 1266 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
146789	5.0356	1246
146790	0.1698	53
146793	0.1489	64
146791	0.0813	35
146792	0.0674	28

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
calcaneal tendon	UBERON:0003701	94.91	gold quality
right uterine tube	UBERON:0001302	94.01	gold quality
bronchial epithelial cell	CL:0002328	93.25	gold quality
bronchus	UBERON:0002185	91.58	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	89.62	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	87.48	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	87.24	gold quality
ventricular zone	UBERON:0003053	84.74	gold quality
oocyte	CL:0000023	83.72	gold quality
adenohypophysis	UBERON:0002196	83.20	gold quality
mucosa of paranasal sinus	UBERON:0005030	83.14	gold quality
ganglionic eminence	UBERON:0004023	82.82	gold quality
secondary oocyte	CL:0000655	81.63	gold quality
pituitary gland	UBERON:0000007	81.44	gold quality
right testis	UBERON:0004534	81.40	gold quality
left testis	UBERON:0004533	81.10	gold quality
testis	UBERON:0000473	80.80	gold quality
fallopian tube	UBERON:0003889	80.39	gold quality
metanephros cortex	UBERON:0010533	79.86	gold quality
islet of Langerhans	UBERON:0000006	79.39	gold quality
minor salivary gland	UBERON:0001830	78.94	gold quality
oviduct epithelium	UBERON:0004804	78.93	gold quality
bone marrow cell	CL:0002092	77.26	gold quality
adrenal tissue	UBERON:0018303	76.97	gold quality
left lobe of thyroid gland	UBERON:0001120	76.82	gold quality
rectum	UBERON:0001052	76.81	gold quality
thyroid gland	UBERON:0002046	76.71	gold quality
gall bladder	UBERON:0002110	76.65	gold quality
right adrenal gland cortex	UBERON:0035827	76.40	gold quality
left adrenal gland cortex	UBERON:0035825	76.26	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	7.64
E-MTAB-6058	no	296.66

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

26 targeting TEX9, 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-579-3P	99.86	71.66	3628
HSA-MIR-4698	99.84	71.41	4303
HSA-MIR-664B-3P	99.84	71.65	3590
HSA-MIR-4639-5P	99.81	67.37	1028
HSA-MIR-4306	99.72	70.50	3630
HSA-MIR-7150	99.62	66.80	1322
HSA-MIR-4328	99.57	71.06	4094
HSA-MIR-185-5P	99.35	68.60	2497
HSA-MIR-4644	99.35	69.12	2514
HSA-MIR-5701	98.97	69.54	1502
HSA-MIR-9903	98.47	66.70	748
HSA-MIR-1199-5P	98.44	66.51	829
HSA-MIR-6751-3P	98.44	66.35	835
HSA-MIR-640	98.44	66.93	644
HSA-MIR-6516-5P	98.42	70.19	1551
HSA-MIR-561-5P	98.25	68.13	1365
HSA-MIR-6880-5P	98.08	65.59	1282
HSA-MIR-4736	97.96	65.89	1287
HSA-MIR-3921	97.81	67.45	1431
HSA-MIR-3665	97.73	65.08	975
HSA-MIR-562	97.66	65.63	698
HSA-MIR-4670-3P	97.37	68.35	1378
HSA-MIR-4653-5P	97.22	67.72	1429
HSA-MIR-125A-3P	97.04	66.92	902
HSA-MIR-345-5P	96.40	66.43	663
HSA-MIR-644A	96.02	66.52	786

Literature-anchored findings (GeneRIF, showing 1)

• Testis-expressed protein 9 (TEX9) expression is positively associated with eukaryotic translation initiation factor 3 subunit b (eIF3b) expression in esophageal squamous cell carcinoma (ESCC). TEX9 expression is positively correlated with tumor-node-metastasis stage in ESCC. eIF3b binding to TEX9 mRNA functionally synergizes to promote the proliferation and migration, and inhibit the apoptosis of ESCC cells. (PMID:31481019)

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
danio_rerio	tex9	ENSDARG00000010586
mus_musculus	Tex9	ENSMUSG00000090626
rattus_norvegicus	Tex9	ENSRNOG00000059702
drosophila_melanogaster	CG4681	FBGN0069913

Protein

Protein identifiers

Testis-expressed protein 9 — Q8N6V9 (reviewed: Q8N6V9)

All UniProt accessions (9): Q8N6V9, A0A0S2Z5Z9, A0A0S2Z669, A0A0S2Z6S1, H0YKG1, H0YLZ3, H0YM20, H0YND2, H3BS88

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Cytoplasm. Cytoskeleton. Microtubule organizing center. Centrosome. Centriolar satellite.

Isoforms (2)

UniProt ID	Names	Canonical?
Q8N6V9-1	1	yes
Q8N6V9-2	2

RefSeq proteins (16): NP_001273378, NP_001371969, NP_001371970, NP_001371971, NP_001371972, NP_001371973, NP_001371974, NP_001371975, NP_001371976, NP_001371977, NP_001371978, NP_001371979, NP_001371980, NP_001371981, NP_001382425, NP_940926 (=MANE)

Domains & families (InterPro)

UniProt features (5 total): region of interest 2, chain 1, coiled-coil region 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8N6V9-F1	78.74	0.54

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 106 (showing top): SHEPARD_BMYB_MORPHOLINO_UP, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, GOCC_MICROTUBULE_ORGANIZING_CENTER, SENGUPTA_NASOPHARYNGEAL_CARCINOMA_DN, GOCC_CENTROSOME, TAKEDA_TARGETS_OF_NUP98_HOXA9_FUSION_10D_UP, RFX1_02, GATA4_Q3, GOCC_CENTRIOLAR_SATELLITE, MATSUDA_NATURAL_KILLER_DIFFERENTIATION, BRUINS_UVC_RESPONSE_LATE, ESC_V6.5_UP_EARLY.V1_UP, GSE14415_INDUCED_VS_NATURAL_TREG_DN, BANP_TARGET_GENES, DYRK1A_TARGET_GENES

GO Biological Process (0):

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

GO Cellular Component (3): centriolar satellite (GO:0034451), cytoplasm (GO:0005737), cytoskeleton (GO:0005856)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cellular anatomical structure	2
binding	1
centrosome	1
intracellular anatomical structure	1
intracellular membraneless organelle	1

Protein interactions and networks

STRING

470 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TEX9	CCDC112	Q8NEF3	584
TEX9	C10orf88	Q9H8K7	556
TEX9	CCDC60	Q8IWA6	543
TEX9	FAXC	Q5TGI0	542
TEX9	CCDC14	Q49A88	490
TEX9	UTP3	Q9NQZ2	485
TEX9	SPAG17	Q6Q759	479
TEX9	TEX19	Q8NA77	447
TEX9	CCDC13	Q8IYE1	441
TEX9	SPATA4	Q8NEY3	438
TEX9	KIAA0753	Q2KHM9	436
TEX9	TEX26	Q8N6G2	435
TEX9	SPATC1L	Q9H0A9	434
TEX9	BIVM	Q86UB2	424
TEX9	TEX22	C9J3V5	418

IntAct

46 interactions, top by confidence:

A	B	Type	Score
KDM1A	TEX9	psi-mi:“MI:0915”(physical association)	0.670
TEX9	CCDC112	psi-mi:“MI:0915”(physical association)	0.630
CCDC112	TEX9	psi-mi:“MI:0915”(physical association)	0.630
TEX9	GOLGA2	psi-mi:“MI:0915”(physical association)	0.560
NOL4	TEX9	psi-mi:“MI:0915”(physical association)	0.560
TEX9	PPP1R13B	psi-mi:“MI:0915”(physical association)	0.560
GSTA5	TEX9	psi-mi:“MI:0915”(physical association)	0.560
TXNDC9	TEX9	psi-mi:“MI:0915”(physical association)	0.560
TEX9	CCHCR1	psi-mi:“MI:0915”(physical association)	0.560
TEX9	NXF1	psi-mi:“MI:0915”(physical association)	0.560
TEX9	NOL4	psi-mi:“MI:0914”(association)	0.530
DISC1	AP4M1	psi-mi:“MI:0914”(association)	0.530
CCDC148	SCGB2A1	psi-mi:“MI:0914”(association)	0.350
CDK5RAP2	PDHX	psi-mi:“MI:0914”(association)	0.350
SYCE1	RABGAP1L	psi-mi:“MI:0914”(association)	0.350
CEP128	CCDC66	psi-mi:“MI:2364”(proximity)	0.270
PCM1	CCDC66	psi-mi:“MI:2364”(proximity)	0.270
CEP135	CCDC66	psi-mi:“MI:2364”(proximity)	0.270
SPICE1	CCDC66	psi-mi:“MI:2364”(proximity)	0.270
CEP63	CCDC66	psi-mi:“MI:2364”(proximity)	0.270
TEX9	NOL4	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (58): TEX9 (Affinity Capture-MS), CCDC112 (Affinity Capture-MS), NOL4L (Affinity Capture-MS), NOL4 (Affinity Capture-MS), TEX9 (Two-hybrid), TEX9 (Proximity Label-MS), TEX9 (Proximity Label-MS), TEX9 (Proximity Label-MS), TEX9 (Proximity Label-MS), TEX9 (Proximity Label-MS), NOL4 (Affinity Capture-MS), NOL4L (Affinity Capture-MS), CCDC112 (Affinity Capture-MS), TEX9 (Affinity Capture-MS), GOLGA2 (Two-hybrid)

ESM2 similar proteins: A0JMA8, A0MZ66, A0MZ67, A1A5P5, A4IGC3, A5WW21, B3DLE8, H2MTR9, P70302, P84903, Q08DR9, Q0P4J3, Q13586, Q16206, Q28IH8, Q2TAA8, Q3KR99, Q4R6I5, Q5BIX7, Q5I033, Q5M8Y7, Q5RA03, Q5U245, Q5XG48, Q5XIR8, Q6GP65, Q6IP02, Q6IQY5, Q6NRK1, Q6NRW2, Q6NRX3, Q6P0R8, Q6P402, Q7T0S7, Q7Z3E5, Q8BXX9, Q8K2Q9, Q8K4I6, Q8MJK1, Q8N6V9

Diamond homologs: Q8N6V9, Q9D845

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	63
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

2981 predictions. Top by Δscore:

Variant	Effect	Δscore
15:56365671:G:GG	donor_gain	1.0000
15:56373440:GGC:G	acceptor_gain	1.0000
15:56373500:TAATA:T	donor_gain	1.0000
15:56373501:AATA:A	donor_gain	1.0000
15:56373501:AATAG:A	donor_loss	1.0000
15:56373502:ATA:A	donor_gain	1.0000
15:56373502:ATAG:A	donor_loss	1.0000
15:56373503:TA:T	donor_gain	1.0000
15:56373503:TAG:T	donor_loss	1.0000
15:56373504:AGT:A	donor_loss	1.0000
15:56373505:G:GG	donor_gain	1.0000
15:56373506:T:TC	donor_loss	1.0000
15:56373507:AAG:A	donor_loss	1.0000
15:56373508:AG:A	donor_loss	1.0000
15:56383922:T:G	acceptor_gain	1.0000
15:56388462:T:TA	acceptor_gain	1.0000
15:56389313:T:G	acceptor_gain	1.0000
15:56389316:A:AG	acceptor_gain	1.0000
15:56389317:G:GG	acceptor_gain	1.0000
15:56389317:GCCAA:G	acceptor_gain	1.0000
15:56391241:A:AG	acceptor_gain	1.0000
15:56391242:G:GG	acceptor_gain	1.0000
15:56391242:GT:G	acceptor_gain	1.0000
15:56391355:G:GT	donor_gain	1.0000
15:56391397:GTT:G	donor_gain	1.0000
15:56391834:T:G	acceptor_gain	1.0000
15:56394833:GG:G	donor_gain	1.0000
15:56394834:GG:G	donor_gain	1.0000
15:56412407:GAGT:G	donor_gain	1.0000
15:56412410:T:G	donor_gain	1.0000

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000023636 (15:56344119 A>G), RS1000024274 (15:56395093 A>G), RS1000027518 (15:56308715 A>G), RS1000038527 (15:56261577 G>A), RS1000051844 (15:56423991 C>G,T), RS1000081094 (15:56430176 A>C), RS1000102824 (15:56439771 A>G), RS1000111862 (15:56261368 A>T), RS1000119776 (15:56305756 G>A,T), RS1000135877 (15:56436313 C>T), RS1000170264 (15:56305396 A>C,G), RS1000175712 (15:56391065 A>G), RS1000208409 (15:56436166 C>T), RS1000223830 (15:56275104 G>A), RS1000237738 (15:56272602 T>G)

Disease associations

OMIM: gene MIM:620935 | disease phenotypes: MIM:618948

GenCC curated gene-disease

Mondo (1): heterotaxy, visceral, 9, autosomal, with male infertility (MONDO:0030070)

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

24 associations (top):

Study	Trait	p-value
GCST002183_9	Relative hand skill in reading disability	4.000000e-06
GCST002595_8	Clozapine-induced agranulocytosis	9.000000e-07
GCST004602_211	Mean corpuscular volume	5.000000e-11
GCST004621_77	Red cell distribution width	3.000000e-15
GCST004630_160	Mean corpuscular hemoglobin	2.000000e-09
GCST006804_40	Red cell distribution width	9.000000e-14
GCST008962_7	Hematology traits	1.000000e-08
GCST008962_8	Hematology traits	2.000000e-08
GCST90002390_414	Mean corpuscular hemoglobin	2.000000e-31
GCST90002392_427	Mean corpuscular volume	3.000000e-37
GCST90002396_634	Mean reticulocyte volume	6.000000e-31
GCST90002397_256	Mean spheric corpuscular volume	2.000000e-28
GCST90002403_481	Red blood cell count	3.000000e-10
GCST90002404_364	Red cell distribution width	1.000000e-39
GCST90020024_485	A body shape index	2.000000e-09
GCST90020024_487	A body shape index	3.000000e-11
GCST90020025_127	Waist-to-hip ratio adjusted for BMI	3.000000e-09
GCST90020025_129	Waist-to-hip ratio adjusted for BMI	1.000000e-11
GCST90020025_130	Waist-to-hip ratio adjusted for BMI	4.000000e-08
GCST90020027_633	Waist-hip index	9.000000e-10
GCST90020027_635	Waist-hip index	1.000000e-11
GCST90020027_636	Waist-hip index	1.000000e-08
GCST90020029_293	Waist circumference adjusted for body mass index	5.000000e-12
GCST90020029_296	Waist circumference adjusted for body mass index	1.000000e-09

EFO canonical traits (9, from GWAS)

EFO ID	Trait name
EFO:0009902	handedness
EFO:0009188	Red cell distribution width
EFO:0004527	mean corpuscular hemoglobin
EFO:0004348	hematocrit
EFO:0004509	hemoglobin measurement
EFO:0010701	mean reticulocyte volume
EFO:0004305	erythrocyte count
EFO:0007789	BMI-adjusted waist circumference
EFO:0007788	BMI-adjusted waist-hip ratio

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, increases expression	6
Cyclosporine	decreases expression, decreases methylation, increases expression	3
perfluorooctane sulfonic acid	decreases expression	2
Vorinostat	affects cotreatment, increases expression	2
aristolochic acid I	decreases expression	1
sotorasib	affects cotreatment, increases expression	1
triphenyl phosphate	affects expression	1
beta-lapachone	decreases expression	1
arsenite	affects expression	1
sodium arsenite	affects methylation	1
S-(1,2-dichlorovinyl)cysteine	affects cotreatment, decreases 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
jinfukang	decreases expression, affects cotreatment, increases expression	1
incobotulinumtoxinA	increases expression	1
trametinib	affects cotreatment, increases expression	1
NVP-BKM120	affects cotreatment, increases expression	1
Acetaminophen	increases expression	1
Azathioprine	decreases expression	1
Cisplatin	affects cotreatment, increases expression	1
Clorgyline	increases expression	1
Doxorubicin	increases expression	1
Ethyl Methanesulfonate	increases expression	1
Formaldehyde	increases expression	1
Lipopolysaccharides	affects cotreatment, decreases expression	1
Methyl Methanesulfonate	increases expression	1
Phthalic Acids	increases methylation	1
Quercetin	decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Tretinoin	increases expression	1

Clinical trials (associated diseases)

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