TSPAN11

Summary

TSPAN11 (tetraspanin 11, HGNC:30795) is a protein-coding gene on chromosome 12p11.21, encoding Tetraspanin-11 (A1L157). Facilitates focal adhesion assembly to regulate osteoblast alignment and guide bone matrix formation orthogonally to cell orientation.

Predicted to be located in membrane. Predicted to be active in plasma membrane.

Source: NCBI Gene 441631 — RefSeq curated summary.

At a glance

• GWAS associations: 5
• Clinical variants (ClinVar): 51 total
• MANE Select transcript: NM_001370302

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:30795
Approved symbol	TSPAN11
Name	tetraspanin 11
Location	12p11.21
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000110900
Ensembl biotype	protein_coding
OMIM	621013
Entrez	441631

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 6 protein_coding

ENST00000261177, ENST00000535215, ENST00000545802, ENST00000546076, ENST00000851525, ENST00000851526

RefSeq mRNA: 3 — MANE Select: NM_001370302 NM_001080509, NM_001370301, NM_001370302

CCDS: CCDS31765

Canonical transcript exons

ENST00000546076 — 8 exons

Exon	Start	End
ENSE00000734584	30978561	30978635
ENSE00000734586	30979566	30979670
ENSE00000734588	30982532	30982690
ENSE00001308169	30983064	30983150
ENSE00001420563	30953981	30954075
ENSE00002241795	30991856	30996599
ENSE00002292426	30926748	30926796
ENSE00003470949	30963826	30964017

Expression profiles

Bgee: expression breadth ubiquitous, 185 present calls, max score 87.06.

FANTOM5 (CAGE): breadth broad, TPM avg 3.3226 / max 55.5977, expressed in 723 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
124921	1.6301	568
124919	0.9888	378
124918	0.4510	240
124920	0.2526	132

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
tendon of biceps brachii	UBERON:0008188	87.06	gold quality
ventricular zone	UBERON:0003053	86.28	gold quality
tibia	UBERON:0000979	85.68	gold quality
embryo	UBERON:0000922	84.78	gold quality
ganglionic eminence	UBERON:0004023	84.78	gold quality
cardiac muscle of right atrium	UBERON:0003379	83.59	gold quality
muscle layer of sigmoid colon	UBERON:0035805	82.67	gold quality
left ventricle myocardium	UBERON:0006566	81.96	gold quality
dorsal root ganglion	UBERON:0000044	80.31	gold quality
tibial nerve	UBERON:0001323	80.16	gold quality
ileal mucosa	UBERON:0000331	80.12	gold quality
rectum	UBERON:0001052	78.61	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	78.07	gold quality
gall bladder	UBERON:0002110	77.75	gold quality
vermiform appendix	UBERON:0001154	77.68	gold quality
right hemisphere of cerebellum	UBERON:0014890	77.49	gold quality
colonic epithelium	UBERON:0000397	76.70	gold quality
lower esophagus muscularis layer	UBERON:0035833	76.60	gold quality
lower esophagus	UBERON:0013473	76.53	gold quality
caecum	UBERON:0001153	76.11	gold quality
colon	UBERON:0001155	75.76	gold quality
large intestine	UBERON:0000059	75.44	gold quality
cerebellar hemisphere	UBERON:0002245	75.23	gold quality
cerebellar cortex	UBERON:0002129	75.22	gold quality
cerebellum	UBERON:0002037	74.77	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	74.63	gold quality
intestine	UBERON:0000160	74.32	gold quality
mucosa of transverse colon	UBERON:0004991	74.30	gold quality
apex of heart	UBERON:0002098	73.83	gold quality
tendon	UBERON:0000043	73.79	gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

Experiment	Marker?	Max mean expression
E-HCAD-11	yes	25.97
E-ANND-3	yes	3.18
E-MTAB-9543	no	1.22

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

215 targeting TSPAN11, 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-4283	100.00	66.42	2097
HSA-MIR-6876-5P	100.00	67.68	2126
HSA-MIR-4747-5P	100.00	67.90	2681
HSA-MIR-5196-5P	100.00	67.98	2761
HSA-MIR-6833-3P	100.00	70.63	3197
HSA-MIR-4476	100.00	68.18	2030
HSA-MIR-4455	100.00	65.48	1587
HSA-MIR-4510	100.00	66.60	2050
HSA-MIR-6127	100.00	66.76	2188
HSA-MIR-6129	100.00	66.46	2080
HSA-MIR-6130	100.00	66.69	2012
HSA-MIR-6133	100.00	66.48	2064
HSA-MIR-4768-5P	100.00	69.49	2861
HSA-MIR-6748-5P	100.00	65.81	1057
HSA-MIR-4692	100.00	67.32	2066
HSA-MIR-6077	99.99	68.04	2299
HSA-MIR-6870-5P	99.99	68.55	2115
HSA-MIR-150-5P	99.99	66.69	1976
HSA-MIR-4650-5P	99.98	64.69	999
HSA-MIR-4723-5P	99.97	68.70	2034
HSA-MIR-5698	99.97	68.49	2029
HSA-MIR-7111-5P	99.97	68.48	2062
HSA-MIR-6825-5P	99.96	69.81	3431
HSA-MIR-4487	99.96	64.58	1252
HSA-MIR-146A-5P	99.96	68.93	988
HSA-MIR-146B-5P	99.96	69.13	977
HSA-MIR-185-3P	99.95	67.01	1743
HSA-MIR-4525	99.94	64.38	675
HSA-MIR-5010-5P	99.94	64.11	705
HSA-MIR-7153-5P	99.94	68.89	1006

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
danio_rerio	tspan11	ENSDARG00000001781
mus_musculus	Tspan11	ENSMUSG00000030351
rattus_norvegicus	Tspan11	ENSRNOG00000054360

Paralogs (32): TSPAN6 (ENSG00000000003), CD9 (ENSG00000010278), TSPAN9 (ENSG00000011105), TSPAN17 (ENSG00000048140), TSPAN32 (ENSG00000064201), CD82 (ENSG00000085117), TSPAN15 (ENSG00000099282), CD37 (ENSG00000104894), UPK1A (ENSG00000105668), TSPAN12 (ENSG00000106025), TSPAN13 (ENSG00000106537), TSPAN14 (ENSG00000108219), CD81 (ENSG00000110651), PRPH2 (ENSG00000112619), UPK1B (ENSG00000114638), TSPAN1 (ENSG00000117472), TSPAN8 (ENSG00000127324), TSPAN16 (ENSG00000130167), TSPAN2 (ENSG00000134198), CD63 (ENSG00000135404), TSPAN31 (ENSG00000135452), TSPAN3 (ENSG00000140391), CD53 (ENSG00000143119), ROM1 (ENSG00000149489), TSPAN7 (ENSG00000156298), TSPAN18 (ENSG00000157570), TSPAN33 (ENSG00000158457), TSPAN5 (ENSG00000168785), CD151 (ENSG00000177697), TSPAN10 (ENSG00000182612), TSPAN4 (ENSG00000214063), TSPAN19 (ENSG00000231738)

Protein

Protein identifiers

Tetraspanin-11 — A1L157 (reviewed: A1L157)

All UniProt accessions (3): A1L157, F5H195, F5H2P0

UniProt curated annotations — full annotation on UniProt →

Function. Facilitates focal adhesion assembly to regulate osteoblast alignment and guide bone matrix formation orthogonally to cell orientation.

Subcellular location. Membrane.

Similarity. Belongs to the tetraspanin (TM4SF) family.

RefSeq proteins (3): NP_001073978, NP_001357230, NP_001357231* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000301	Tetraspanin_animals	Family
IPR008952	Tetraspanin_EC2_sf	Homologous_superfamily
IPR018499	Tetraspanin/Peripherin	Family

Pfam: PF00335

UniProt features (7 total): transmembrane region 4, chain 1, glycosylation site 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A1L157-F1	87.59	0.58

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Glycosylation sites (1): 127

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 79 (showing top): GOBP_FOCAL_ADHESION_ASSEMBLY, chr12p11, GOBP_CELL_JUNCTION_ORGANIZATION, GOBP_CELL_JUNCTION_ASSEMBLY, GOBP_CELL_SUBSTRATE_ADHESION, GOBP_CELL_MATRIX_ADHESION, RIGGI_EWING_SARCOMA_PROGENITOR_UP, ZHANG_GATA6_TARGETS_DN, MEISSNER_ES_ICP_WITH_H3K4ME3_AND_H3K27ME3, YAUCH_HEDGEHOG_SIGNALING_PARACRINE_UP, MIKKELSEN_ES_ICP_WITH_H3K4ME3_AND_H3K27ME3, MIKKELSEN_NPC_ICP_WITH_H3K4ME3, ZWANG_TRANSIENTLY_UP_BY_2ND_EGF_PULSE_ONLY, GSE13522_WT_VS_IFNAR_KO_SKING_T_CRUZI_Y_STRAIN_INF_DN, GOBP_CELL_SUBSTRATE_JUNCTION_ORGANIZATION

GO Biological Process (1): focal adhesion assembly (GO:0048041)

GO Molecular Function (0):

GO Cellular Component (2): plasma membrane (GO:0005886), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cell-substrate junction assembly	1
cell-matrix adhesion	1
membrane	1
cell periphery	1
cellular anatomical structure	1

Protein interactions and networks

STRING

718 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TSPAN11	Q8NFD4	Q8NFD4	593
TSPAN11	TSPAN13	O95857	540
TSPAN11	TMEM98	Q9Y2Y6	475
TSPAN11	TSPAN31	Q12999	463
TSPAN11	TSPAN32	Q96QS1	438
TSPAN11	ZBTB8B	Q8NAP8	404
TSPAN11	EFNA5	P52803	398
TSPAN11	GPRC5B	Q9NZH0	376
TSPAN11	DNAAF10	Q96MX6	368
TSPAN11	TSGA10IP	Q3SY00	350
TSPAN11	PKHD1L1	Q86WI1	349
TSPAN11	KIAA0513	O60268	348
TSPAN11	NRIP2	Q9BQI9	347
TSPAN11	CMTM6	Q9NX76	342
TSPAN11	NOL10	Q9BSC4	339

IntAct

3 interactions, top by confidence:

A	B	Type	Score
TSPAN11	IGLL5	psi-mi:“MI:0914”(association)	0.530

BioGRID (21): POMC (Affinity Capture-MS), ITGA6 (Affinity Capture-MS), ITGA7 (Affinity Capture-MS), ESYT1 (Affinity Capture-MS), CYB5R3 (Affinity Capture-MS), IGLL5 (Affinity Capture-MS), NRP2 (Affinity Capture-MS), ARL6IP5 (Affinity Capture-MS), ITGB1 (Affinity Capture-MS), REEP5 (Affinity Capture-MS), TM9SF4 (Affinity Capture-MS), TSPAN11 (Affinity Capture-RNA), ITGA6 (Affinity Capture-MS), ITGA7 (Affinity Capture-MS), CYB5R3 (Affinity Capture-MS)

ESM2 similar proteins: A0A8M2B5N2, A0A8V0ZLT4, A1L157, O00322, O60637, O75841, P11049, P19075, P21926, P30409, P30413, P30932, P31053, P38572, P38573, P40239, P40240, P40241, Q0D289, Q2KHY8, Q2MJQ7, Q3SZR9, Q4R4Z3, Q4R7W6, Q566D0, Q568Y5, Q58CY8, Q5RDV7, Q5RE11, Q5RH71, Q61470, Q6AYR9, Q6GQF5, Q6P0C6, Q6ZUX7, Q80WR1, Q8WMQ3, Q91Y55, Q925N4, Q96FX8

Diamond homologs: A1L157, B5X3I6, O14817, O35566, O60636, O70352, P19075, P24485, P27701, P40241, P48509, P60033, P60034, P61170, P61171, Q0VC33, Q3ZBH3, Q4V8E0, Q568Y5, Q58CY8, Q58DN3, Q5R9S6, Q5RAP3, Q61451, Q80WR1, Q8WMQ3, Q96FV3, Q96SJ8, Q9D1D1, Q9D7W4, Q9DCK3, Q9JJW1, Q9QZA6, A0A8M2B5N2, A0A8V0ZLT4, B0BM39, B3VSC2, H2L006, O75954, O97703

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	34
Likely benign	4
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1489 predictions. Top by Δscore:

Variant	Effect	Δscore
12:30926794:AGGG:A	donor_loss	1.0000
12:30926795:GG:G	donor_gain	1.0000
12:30926796:GG:G	donor_gain	1.0000
12:30926797:GTAA:G	donor_loss	1.0000
12:30978555:T:A	acceptor_gain	1.0000
12:30978559:A:AG	acceptor_gain	1.0000
12:30978560:G:GA	acceptor_gain	1.0000
12:30978560:GT:G	acceptor_gain	1.0000
12:30979562:TCAG:T	acceptor_loss	1.0000
12:30979563:CAGC:C	acceptor_loss	1.0000
12:30979564:A:AG	acceptor_gain	1.0000
12:30979564:AGCT:A	acceptor_gain	1.0000
12:30979565:G:GG	acceptor_gain	1.0000
12:30979565:GC:G	acceptor_gain	1.0000
12:30979565:GCT:G	acceptor_gain	1.0000
12:30979565:GCTG:G	acceptor_gain	1.0000
12:30979565:GCTGA:G	acceptor_gain	1.0000
12:30979667:GGAT:G	donor_gain	1.0000
12:30979668:GAT:G	donor_gain	1.0000
12:30979668:GATG:G	donor_gain	1.0000
12:30979671:G:GG	donor_gain	1.0000
12:30982523:T:TA	acceptor_gain	1.0000
12:30982530:A:AG	acceptor_gain	1.0000
12:30982531:G:GG	acceptor_gain	1.0000
12:30982531:GT:G	acceptor_gain	1.0000
12:30982531:GTT:G	acceptor_gain	1.0000
12:30982531:GTTCA:G	acceptor_gain	1.0000
12:30982686:TGGAG:T	donor_loss	1.0000
12:30982689:AGG:A	donor_loss	1.0000
12:30982690:GGTGA:G	donor_loss	1.0000

AlphaMissense

1636 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
12:30982567:G:C	W164C	0.999
12:30982567:G:T	W164C	0.999
12:30982628:T:A	C185S	0.995
12:30982629:G:C	C185S	0.995
12:30982541:T:A	C156S	0.994
12:30982542:G:C	C156S	0.994
12:30982545:G:A	G157E	0.994
12:30982565:T:A	W164R	0.994
12:30982565:T:C	W164R	0.994
12:30979660:T:C	L149P	0.993
12:30982538:T:A	C155S	0.993
12:30982539:G:C	C155S	0.993
12:30982538:T:C	C155R	0.992
12:30982542:G:A	C156Y	0.992
12:30982625:T:A	C184S	0.992
12:30982626:G:A	C184Y	0.992
12:30982626:G:C	C184S	0.992
12:30982629:G:A	C185Y	0.992
12:30982617:C:A	P181H	0.991
12:30982622:A:C	S183R	0.991
12:30982624:C:A	S183R	0.991
12:30982624:C:G	S183R	0.991
12:30982649:T:A	C192S	0.991
12:30982650:G:C	C192S	0.991
12:30982625:T:C	C184R	0.990
12:30983070:T:A	C208S	0.990
12:30983071:G:C	C208S	0.990
12:30983142:T:C	C232R	0.989
12:30982627:C:G	C184W	0.988
12:30982630:C:G	C185W	0.988

dbSNP variants (sampled 300 via entrez): RS1000025433 (12:30988328 C>T), RS1000042764 (12:30946604 C>T), RS1000156437 (12:30946369 G>T), RS1000187010 (12:30953431 C>T), RS1000208089 (12:30986593 G>A), RS1000265685 (12:30953376 G>A), RS1000290497 (12:30993978 T>C), RS1000319223 (12:30953128 C>T), RS1000333326 (12:30933862 G>A), RS1000358549 (12:30999406 T>G), RS1000386350 (12:30999908 G>A,T), RS1000410970 (12:30999601 T>C), RS1000436432 (12:30946963 A>G), RS1000456673 (12:30981072 C>G,T), RS1000544916 (12:30985150 C>G)

Disease associations

OMIM: gene MIM:621013 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

5 associations (top):

Study	Trait	p-value
GCST003263_39	Post bronchodilator FEV1 in COPD	2.000000e-06
GCST004162_27	Carotid plaque burden	2.000000e-06
GCST005359_20	Disease progression in age-related macular degeneration	4.000000e-06
GCST009462_114	Optic disc size	2.000000e-17
GCST011742_62	Triglyceride levels in HIV infection	2.000000e-06

EFO canonical traits (4, from GWAS)

EFO ID	Trait name
EFO:0004314	forced expiratory volume
EFO:0006501	carotid plaque build
EFO:0008336	disease progression measurement
EFO:0004530	triglyceride measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

25 total (human), top 25 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, decreases expression, affects expression	6
Benzo(a)pyrene	affects methylation, decreases methylation	2
Doxorubicin	increases expression	2
Nickel	decreases expression	2
bisphenol A	decreases methylation	1
trichostatin A	decreases expression	1
sodium arsenite	decreases expression	1
perfluorooctanoic acid	increases expression	1
aflatoxin B2	increases methylation	1
S-(1,2-dichlorovinyl)cysteine	increases expression, affects cotreatment, decreases expression, affects response to substance	1
CGP 52608	affects binding, increases reaction	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	decreases expression, affects cotreatment	1
abrine	increases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
Sunitinib	increases expression	1
Acetaminophen	decreases expression	1
Carbamazepine	affects expression	1
Dexamethasone	decreases expression	1
Estradiol	decreases expression, affects cotreatment	1
Lipopolysaccharides	increases expression, affects cotreatment, decreases expression, affects response to substance	1
Progesterone	affects cotreatment, decreases expression	1
Silicon Dioxide	decreases expression	1
Smoke	decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Aflatoxin B1	increases methylation	1

Clinical trials (associated diseases)

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