FNDC11

Summary

FNDC11 (fibronectin type III domain containing 11, HGNC:28764) is a protein-coding gene on chromosome 20q13.33, encoding Fibronectin type III domain-containing protein 11 (Q9BVV2).

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 7 total
• MANE Select transcript: NM_001319152

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28764
Approved symbol	FNDC11
Name	fibronectin type III domain containing 11
Location	20q13.33
Locus type	gene with protein product
Status	Approved
Aliases	MGC5356
Ensembl gene	ENSG00000125531
Ensembl biotype	protein_coding
Entrez	79025

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 8 protein_coding

ENST00000370097, ENST00000370098, ENST00000611891, ENST00000615526, ENST00000902241, ENST00000902242, ENST00000940188, ENST00000940189

RefSeq mRNA: 3 — MANE Select: NM_001319152 NM_001319152, NM_001319153, NM_024059

CCDS: CCDS13526

Canonical transcript exons

ENST00000370097 — 2 exons

Exon	Start	End
ENSE00001451763	63554159	63554206
ENSE00001451765	63555654	63556695

Expression profiles

Bgee: expression breadth ubiquitous, 154 present calls, max score 95.89.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.1914 / max 99.6898, expressed in 47 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
185838	0.1636	43
185839	0.0156	5
185837	0.0122	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
left testis	UBERON:0004533	95.89	gold quality
right testis	UBERON:0004534	95.69	gold quality
testis	UBERON:0000473	92.82	gold quality
adult organism	UBERON:0007023	89.75	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	88.75	gold quality
sperm	CL:0000019	84.87	silver quality
male germ cell	CL:0000015	84.70	silver quality
epithelium of bronchus	UBERON:0002031	81.08	gold quality
bronchial epithelial cell	CL:0002328	80.77	gold quality
bronchus	UBERON:0002185	79.98	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	70.14	gold quality
right uterine tube	UBERON:0001302	68.47	gold quality
epithelium of nasopharynx	UBERON:0001951	65.70	gold quality
ganglionic eminence	UBERON:0004023	65.49	gold quality
mucosa of paranasal sinus	UBERON:0005030	64.77	gold quality
ventricular zone	UBERON:0003053	64.46	gold quality
nasal cavity epithelium	UBERON:0005384	63.45	gold quality
granulocyte	CL:0000094	63.08	gold quality
corpus epididymis	UBERON:0004359	60.63	silver quality
buccal mucosa cell	CL:0002336	59.68	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	59.19	gold quality
nasal cavity mucosa	UBERON:0001826	59.06	gold quality
stromal cell of endometrium	CL:0002255	58.85	gold quality
embryo	UBERON:0000922	58.56	gold quality
cauda epididymis	UBERON:0004360	58.17	gold quality
amniotic fluid	UBERON:0000173	57.88	gold quality
tendon of biceps brachii	UBERON:0008188	57.33	gold quality
gluteal muscle	UBERON:0002000	56.76	gold quality
triceps brachii	UBERON:0001509	56.62	gold quality
blood	UBERON:0000178	56.44	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.17

Regulation

Is transcription factor: no

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Fndc11	ENSMUSG00000047841
rattus_norvegicus	Fndc11	ENSRNOG00000013243

Protein

Protein identifiers

Fibronectin type III domain-containing protein 11 — Q9BVV2 (reviewed: Q9BVV2)

All UniProt accessions (2): Q9BVV2, A0A087X0Q0

RefSeq proteins (3): NP_001306081, NP_001306082, NP_076964 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR003961	FN3_dom	Domain
IPR036116	FN3_sf	Homologous_superfamily
IPR039581	FNDC11	Family
IPR048317	DUF5581_C	Domain
IPR049231	DUF5581_N	Domain

Pfam: PF17744, PF20996

UniProt features (2 total): chain 1, domain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9BVV2-F1	82.87	0.55

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 43 (showing top): GNF2_CCNA1, PODAR_RESPONSE_TO_ADAPHOSTIN_UP, GSE13762_CTRL_VS_125_VITAMIND_DAY5_DC_UP, NIKOLSKY_BREAST_CANCER_20Q12_Q13_AMPLICON, DODD_NASOPHARYNGEAL_CARCINOMA_DN, MIKKELSEN_ES_ICP_WITH_H3K4ME3, MIKKELSEN_NPC_ICP_WITH_H3K4ME3, ATF2_S_UP.V1_UP, FOXN3_TARGET_GENES, IRF5_TARGET_GENES, KMT2D_TARGET_GENES, ZFP91_TARGET_GENES, ZNF30_TARGET_GENES, GSE10325_BCELL_VS_LUPUS_BCELL_UP, GSE12845_IGD_POS_BLOOD_VS_NAIVE_TONSIL_BCELL_UP

GO Biological Process (0):

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

GO Cellular Component (0):

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1

Protein interactions and networks

STRING

156 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
FNDC11	GMEB2	Q9UKD1	550
FNDC11	ZGPAT	Q8N5A5	533
FNDC11	ABHD16B	Q9H3Z7	517
FNDC11	OR51V1	Q9H2C8	505
FNDC11	ARFRP1	Q13795	494
FNDC11	LIME1	Q9H400	433
FNDC11	RSPH14	Q9UHP6	431
FNDC11	SLC2A4RG	Q9NR83	428
FNDC11	STMN3	Q9NZ72	418
FNDC11	PTK6	Q13882	400
FNDC11	A0A0B4J2G0	A0A0B4J2G0	391
FNDC11	PPDPF	Q9H3Y8	377
FNDC11	ZBTB46	Q86UZ6	370
FNDC11	ARHGAP28	Q9P2N2	349
FNDC11	RTEL1	Q9NZ71	335

IntAct

147 interactions, top by confidence:

A	B	Type	Score
FNDC11	GPBP1	psi-mi:“MI:0915”(physical association)	0.830
GPBP1	FNDC11	psi-mi:“MI:0915”(physical association)	0.830
CDA	FNDC11	psi-mi:“MI:0915”(physical association)	0.720
MAGEA12	FNDC11	psi-mi:“MI:0915”(physical association)	0.720
FNDC11	MAGEA12	psi-mi:“MI:0915”(physical association)	0.720
FNDC11	CDA	psi-mi:“MI:0915”(physical association)	0.720
CALCOCO2	FNDC11	psi-mi:“MI:0915”(physical association)	0.670
FNDC11	CALCOCO2	psi-mi:“MI:0915”(physical association)	0.670
FNDC11	CCDC102B	psi-mi:“MI:0915”(physical association)	0.560
FNDC11		psi-mi:“MI:0915”(physical association)	0.560
FNDC11	TRIM27	psi-mi:“MI:0915”(physical association)	0.560
FNDC11	REL	psi-mi:“MI:0915”(physical association)	0.560
FNDC11	GOLGA2	psi-mi:“MI:0915”(physical association)	0.560
MTUS2	FNDC11	psi-mi:“MI:0915”(physical association)	0.560
KRT40	FNDC11	psi-mi:“MI:0915”(physical association)	0.560
HMBOX1	FNDC11	psi-mi:“MI:0915”(physical association)	0.560
FNDC11	GPBP1	psi-mi:“MI:0915”(physical association)	0.560
FNDC11	FAM9B	psi-mi:“MI:0915”(physical association)	0.560
RBPMS	FNDC11	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (78): C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), C20orf195 (Two-hybrid), HMBOX1 (Two-hybrid), CCDC102B (Two-hybrid), LZTS2 (Two-hybrid), SSX2IP (Two-hybrid), KRT40 (Two-hybrid)

ESM2 similar proteins: A0A2R8Y7D0, A3KMV1, A6NDN8, B9EHT4, D3YWQ0, F1MAB7, O23702, O54788, O75426, O76075, P04413, P0C5J9, P49897, P55073, Q1LZC5, Q28969, Q2T9Z2, Q2VPJ9, Q39491, Q3MHJ7, Q3TGW2, Q4R327, Q57VU6, Q58CZ0, Q5BIR3, Q5I3B1, Q5R4R7, Q5R686, Q5SPX3, Q5XI74, Q6DN07, Q6NXT1, Q6P7W2, Q6QN11, Q6X4W1, Q7L9B9, Q7TPD7, Q80TL4, Q8K485, Q8TBC3

Diamond homologs: Q2T9Z2, Q80WB0, Q9BVV2

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

303 predictions. Top by Δscore:

Variant	Effect	Δscore
20:63553108:G:GT	donor_gain	0.9900
20:63553123:GTGTC:G	donor_gain	0.9400
20:63553124:TGTCT:T	donor_gain	0.9400
20:63554054:G:GT	donor_gain	0.9400
20:63554174:G:T	donor_gain	0.9400
20:63553097:TGAAG:T	donor_loss	0.9200
20:63553098:GAAGG:G	donor_loss	0.9200
20:63553099:AAG:A	donor_loss	0.9200
20:63553100:AGGTG:A	donor_loss	0.9200
20:63553101:GGTGA:G	donor_loss	0.9200
20:63553102:GT:G	donor_loss	0.9200
20:63553103:T:G	donor_loss	0.9200
20:63554174:G:GT	donor_gain	0.9200
20:63554039:G:GT	donor_gain	0.9100
20:63555652:A:AG	acceptor_gain	0.9100
20:63555653:G:GG	acceptor_gain	0.9100
20:63553062:G:GT	donor_gain	0.8800
20:63553074:G:GT	donor_gain	0.8800
20:63554203:C:T	donor_gain	0.8700
20:63554208:C:T	donor_gain	0.8700
20:63553065:G:GT	donor_gain	0.8500
20:63554561:GGCT:G	donor_gain	0.8200
20:63553109:A:T	donor_gain	0.8100
20:63553099:A:T	donor_gain	0.8000
20:63553104:G:GT	donor_gain	0.8000
20:63554159:G:T	donor_gain	0.7800
20:63555648:CCCCA:C	acceptor_loss	0.7800
20:63555649:CCCAG:C	acceptor_loss	0.7800
20:63555650:CCAG:C	acceptor_loss	0.7800
20:63555651:CAGC:C	acceptor_loss	0.7800

AlphaMissense

2056 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
20:63556505:T:C	F281S	0.995
20:63556298:T:C	F212S	0.991
20:63556504:T:C	F281L	0.991
20:63556506:C:A	F281L	0.991
20:63556506:C:G	F281L	0.991
20:63556345:T:A	W228R	0.989
20:63556345:T:C	W228R	0.989
20:63556388:T:C	L242S	0.988
20:63556297:T:C	F212L	0.987
20:63556299:T:A	F212L	0.987
20:63556299:T:G	F212L	0.987
20:63555999:G:C	K112N	0.984
20:63555999:G:T	K112N	0.984
20:63556498:T:G	Y279D	0.984
20:63556549:T:A	W296R	0.984
20:63556549:T:C	W296R	0.984
20:63556007:G:A	G115D	0.983
20:63556511:T:A	I283N	0.983
20:63556292:T:A	V210D	0.980
20:63556298:T:G	F212C	0.979
20:63556518:G:C	R285S	0.979
20:63556518:G:T	R285S	0.979
20:63556006:G:C	G115R	0.978
20:63555889:T:G	Y76D	0.974
20:63556481:T:A	L273Q	0.973
20:63556289:C:A	P209H	0.972
20:63556511:T:G	I283S	0.970
20:63556556:A:T	D298V	0.970
20:63556025:T:C	I121T	0.969
20:63556181:T:C	F173S	0.969

dbSNP variants (sampled 300 via entrez): RS1000149258 (20:63552534 G>A), RS1001302991 (20:63551889 C>T), RS1001338645 (20:63551566 A>C,G), RS1002185245 (20:63553757 C>A), RS1003199331 (20:63554885 G>A,T), RS1003911342 (20:63555147 C>T), RS1003946448 (20:63557055 C>G,T), RS1004370282 (20:63552603 C>G), RS1004406841 (20:63552775 G>A,C), RS1005104580 (20:63551337 G>A), RS1005159541 (20:63552242 G>C), RS1006277539 (20:63555054 G>A), RS1006701475 (20:63556002 G>A,T), RS1006880571 (20:63551094 A>C), RS1007167042 (20:63551756 T>C)

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

1 associations (top):

Study	Trait	p-value
GCST001942_22	Prostate cancer	4.000000e-16

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, decreases expression, affects expression, increases methylation	5
Phenylmercuric Acetate	decreases expression, affects cotreatment	2
sotorasib	affects cotreatment, decreases expression	1
propionaldehyde	increases expression	1
bisphenol A	increases methylation	1
trichostatin A	decreases expression	1
arsenite	affects binding, decreases reaction	1
butyraldehyde	increases expression	1
4-aminophenylarsenoxide	affects binding, decreases reaction	1
di-n-butylphosphoric acid	affects expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
trametinib	affects cotreatment, decreases expression	1
NVP-BKM120	affects cotreatment, decreases expression	1
Arsenic Trioxide	affects binding, decreases reaction	1
Benzo(a)pyrene	affects methylation, increases methylation	1
Copper	affects binding, decreases expression	1
Diazinon	increases methylation	1
Diethylstilbestrol	decreases expression	1
Disulfiram	affects binding, decreases expression	1
Estradiol	decreases expression	1
Thimerosal	decreases expression	1
Tobacco Smoke Pollution	increases expression	1
1-Methyl-4-phenylpyridinium	increases expression	1
Copper Sulfate	increases expression	1
Acrylamide	increases expression	1

Clinical trials (associated diseases)

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