FLRT1
geneOn this page
Also known as MGC21624SPG68
Summary
FLRT1 (fibronectin leucine rich transmembrane protein 1, HGNC:3760) is a protein-coding gene on chromosome 11q13.1, encoding Leucine-rich repeat transmembrane protein FLRT1 (Q9NZU1). Plays a role in fibroblast growth factor-mediated signaling cascades that lead to the activation of MAP kinases.
This gene encodes a member of the fibronectin leucine rich transmembrane protein (FLRT) family. The family members may function in cell adhesion and/or receptor signalling. Their protein structures resemble small leucine-rich proteoglycans found in the extracellular matrix. The encoded protein shares sequence similarity with two other family members, FLRT2 and FLRT3. This gene is expressed in kidney and brain.
Source: NCBI Gene 23769 — RefSeq curated summary.
At a glance
- Gene–disease (curated): spastic paraplegia, optic atropy, and neuropathy (Supportive, GenCC)
- GWAS associations: 12
- Clinical variants (ClinVar): 186 total
- Phenotypes (HPO): 20
- MANE Select transcript:
NM_013280
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:3760 |
| Approved symbol | FLRT1 |
| Name | fibronectin leucine rich transmembrane protein 1 |
| Location | 11q13.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | MGC21624, SPG68 |
| Ensembl gene | ENSG00000126500 |
| Ensembl biotype | protein_coding |
| OMIM | 604806 |
| Entrez | 23769 |
Gene structure
Transcript identifiers
Ensembl transcripts: 4 — 4 protein_coding
ENST00000246841, ENST00000682287, ENST00000715990, ENST00000909266
RefSeq mRNA: 3 — MANE Select: NM_013280
NM_001384466, NM_001423967, NM_013280
CCDS: CCDS8057
Canonical transcript exons
ENST00000682287 — 3 exons
| Exon | Start | End |
|---|---|---|
| ENSE00003916832 | 64035931 | 64036159 |
| ENSE00003919589 | 64116219 | 64119171 |
| ENSE00003921762 | 64103194 | 64104181 |
Expression profiles
Bgee: expression breadth ubiquitous, 188 present calls, max score 89.19.
FANTOM5 (CAGE): breadth broad, TPM avg 1.2136 / max 41.2397, expressed in 304 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 114856 | 0.8818 | 280 |
| 114858 | 0.2832 | 98 |
| 114857 | 0.0487 | 28 |
Top tissues by expression
288 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| Brodmann (1909) area 10 | UBERON:0013541 | 89.19 | gold quality |
| olfactory bulb | UBERON:0002264 | 86.40 | silver quality |
| frontal pole | UBERON:0002795 | 86.15 | gold quality |
| type B pancreatic cell | CL:0000169 | 84.92 | gold quality |
| buccal mucosa cell | CL:0002336 | 84.81 | silver quality |
| paraflocculus | UBERON:0005351 | 84.33 | gold quality |
| ventral tegmental area | UBERON:0002691 | 84.31 | gold quality |
| inferior vagus X ganglion | UBERON:0005363 | 83.99 | gold quality |
| cerebellar vermis | UBERON:0004720 | 82.96 | gold quality |
| dorsal plus ventral thalamus | UBERON:0001897 | 82.63 | gold quality |
| diaphragm | UBERON:0001103 | 82.35 | gold quality |
| globus pallidus | UBERON:0001875 | 82.23 | silver quality |
| medial globus pallidus | UBERON:0002477 | 81.99 | silver quality |
| subthalamic nucleus | UBERON:0001906 | 81.78 | gold quality |
| mucosa of urinary bladder | UBERON:0001259 | 81.60 | gold quality |
| middle frontal gyrus | UBERON:0002702 | 81.46 | gold quality |
| renal medulla | UBERON:0000362 | 80.73 | gold quality |
| lateral globus pallidus | UBERON:0002476 | 80.50 | gold quality |
| prefrontal cortex | UBERON:0000451 | 80.46 | gold quality |
| orbitofrontal cortex | UBERON:0004167 | 80.12 | gold quality |
| lateral nuclear group of thalamus | UBERON:0002736 | 79.49 | silver quality |
| superior vestibular nucleus | UBERON:0007227 | 79.46 | gold quality |
| tongue squamous epithelium | UBERON:0006919 | 79.13 | gold quality |
| hair follicle | UBERON:0002073 | 78.45 | gold quality |
| dorsal root ganglion | UBERON:0000044 | 78.07 | gold quality |
| Brodmann (1909) area 46 | UBERON:0006483 | 77.96 | gold quality |
| cortical plate | UBERON:0005343 | 77.58 | gold quality |
| medulla oblongata | UBERON:0001896 | 77.50 | gold quality |
| frontal cortex | UBERON:0001870 | 77.01 | gold quality |
| vena cava | UBERON:0004087 | 76.76 | silver quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 2.27 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
55 targeting FLRT1, 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-6798-5P | 100.00 | 65.77 | 699 |
| HSA-MIR-4482-3P | 99.98 | 72.50 | 3147 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
| HSA-MIR-3688-3P | 99.97 | 72.02 | 2834 |
| HSA-MIR-185-3P | 99.95 | 67.01 | 1743 |
| HSA-MIR-6845-3P | 99.94 | 66.88 | 1439 |
| HSA-MIR-1236-3P | 99.94 | 68.04 | 1695 |
| HSA-MIR-6809-3P | 99.91 | 71.45 | 3814 |
| HSA-LET-7A-2-3P | 99.87 | 70.53 | 1921 |
| HSA-LET-7G-3P | 99.85 | 70.43 | 1929 |
| HSA-MIR-544A | 99.84 | 68.66 | 1965 |
| HSA-MIR-6875-3P | 99.82 | 70.26 | 2983 |
| HSA-MIR-4668-5P | 99.79 | 70.58 | 3782 |
| HSA-MIR-6885-3P | 99.75 | 70.36 | 3187 |
| HSA-MIR-1208 | 99.70 | 68.28 | 1533 |
| HSA-MIR-1283 | 99.69 | 72.42 | 3009 |
| HSA-MIR-12124 | 99.68 | 69.17 | 2700 |
| HSA-MIR-5093 | 99.67 | 69.26 | 2291 |
| HSA-MIR-6887-3P | 99.66 | 67.83 | 1778 |
| HSA-MIR-26A-1-3P | 99.64 | 66.81 | 788 |
| HSA-MIR-26A-2-3P | 99.64 | 66.82 | 786 |
| HSA-MIR-1207-5P | 99.49 | 69.11 | 2983 |
| HSA-MIR-5683 | 99.36 | 68.59 | 2083 |
| HSA-MIR-3160-5P | 99.28 | 69.07 | 1938 |
| HSA-MIR-4667-3P | 99.26 | 65.45 | 1608 |
| HSA-MIR-4685-5P | 99.25 | 65.99 | 1563 |
| HSA-MIR-6837-5P | 99.25 | 65.47 | 1632 |
| HSA-MIR-4763-3P | 99.10 | 67.83 | 2649 |
| HSA-MIR-6738-3P | 99.03 | 67.14 | 1326 |
Literature-anchored findings (GeneRIF, showing 1)
- the phosphorylation state of FLRT1, which is itself FGFR1 dependent, may play a critical role in the potentiation of FGFR1 signalling and may also depend on a SFK-dependent phosphorylation mechanism acting via the FGFR (PMID:20421966)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | flrt1b | ENSDARG00000075597 |
| mus_musculus | Flrt1 | ENSMUSG00000047787 |
| rattus_norvegicus | Flrt1 | ENSRNOG00000022428 |
Paralogs (22): DCN (ENSG00000011465), RTN4R (ENSG00000040608), ASPN (ENSG00000106819), FLRT3 (ENSG00000125848), LRRC4 (ENSG00000128594), LRRC4B (ENSG00000131409), PODNL1 (ENSG00000132000), LRTM1 (ENSG00000144771), LRRC4C (ENSG00000148948), LRRTM1 (ENSG00000162951), LRRC15 (ENSG00000172061), PODN (ENSG00000174348), LRRTM4 (ENSG00000176204), BGN (ENSG00000182492), LRRC19 (ENSG00000184434), FLRT2 (ENSG00000185070), GP1BA (ENSG00000185245), RTN4RL1 (ENSG00000185924), RTN4RL2 (ENSG00000186907), NYX (ENSG00000188937), LRRC66 (ENSG00000188993), LRRTM3 (ENSG00000198739)
Protein
Protein identifiers
Leucine-rich repeat transmembrane protein FLRT1 — Q9NZU1 (reviewed: Q9NZU1)
Alternative names: Fibronectin-like domain-containing leucine-rich transmembrane protein 1
All UniProt accessions (1): Q9NZU1
UniProt curated annotations — full annotation on UniProt →
Function. Plays a role in fibroblast growth factor-mediated signaling cascades that lead to the activation of MAP kinases. Promotes neurite outgrowth via FGFR1-mediated activation of downstream MAP kinases. Promotes an increase both in neurite number and in neurite length. May play a role in cell-cell adhesion and cell guidance via its interaction with ADGRL1/LPHN1 and ADGRL3.
Subunit / interactions. Interacts with FGFR1. Interacts (via extracellular domain) with ADGRL1/LPHN1 and ADGRL3 (via olfactomedin-like domain).
Subcellular location. Cell membrane. Endoplasmic reticulum membrane. Cytoplasmic vesicle membrane. Cytoplasm. Perinuclear region. Cell junction. Focal adhesion. Secreted. Cell projection. Neuron projection.
Tissue specificity. Expressed in kidney and brain.
Post-translational modifications. N-glycosylated. Phosphorylated in response to FGFR1 signaling, but is not a direct substrate of FGFR1 or SRC. A mutant where the Tyr phosphorylation sites have been replaced by Phe displays constitutive FGFR1-dependent activation of downstream MAP kinases. Proteolytic cleavage in the juxtamembrane region gives rise to a soluble ectodomain.
Miscellaneous. The curated signal sequence though non-canonical is consistent with the proven topology of the mouse ortholog. Has a predicted canonical N-terminal signal sequence that is consistent with the proven topology of the mouse ortholog. Alternative initiation is supported by ribosome profiling data.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q9NZU1-2 | 2 | yes |
| Q9NZU1-1 | 1 |
RefSeq proteins (3): NP_001371395, NP_001410896, NP_037412* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000372 | LRRNT | Domain |
| IPR000483 | Cys-rich_flank_reg_C | Domain |
| IPR001611 | Leu-rich_rpt | Repeat |
| IPR003591 | Leu-rich_rpt_typical-subtyp | Repeat |
| IPR003961 | FN3_dom | Domain |
| IPR013783 | Ig-like_fold | Homologous_superfamily |
| IPR032675 | LRR_dom_sf | Homologous_superfamily |
| IPR036116 | FN3_sf | Homologous_superfamily |
| IPR050333 | SLRP | Family |
Pfam: PF01462, PF13855
UniProt features (25 total): repeat 10, domain 3, disulfide bond 3, glycosylation site 2, topological domain 2, signal peptide 1, chain 1, splice variant 1, sequence conflict 1, transmembrane region 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9NZU1-F1 | 73.46 | 0.48 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Disulfide bonds (3): 54–60, 58–67, 332–357
Glycosylation sites (2): 249, 305
Function
Pathways and Gene Ontology
Reactome pathways
1 pathways
| ID | Pathway |
|---|---|
| R-HSA-5654687 | Downstream signaling of activated FGFR1 |
MSigDB gene sets: 206 (showing top):
GOBP_DENDRITE_DEVELOPMENT, MYOGENIN_Q6, YAGI_AML_WITH_INV_16_TRANSLOCATION, GOBP_NEURON_PROJECTION_EXTENSION, GOBP_SYNAPSE_ASSEMBLY, REACTOME_SIGNALING_BY_FGFR, GOBP_POSITIVE_REGULATION_OF_SYNAPSE_ASSEMBLY, GOBP_GROWTH, GOBP_NEUROGENESIS, GOBP_REGULATION_OF_CELL_JUNCTION_ASSEMBLY, GOBP_REGULATION_OF_NERVOUS_SYSTEM_DEVELOPMENT, GOBP_REGULATION_OF_CELLULAR_COMPONENT_BIOGENESIS, GOBP_POSITIVE_REGULATION_OF_NERVOUS_SYSTEM_DEVELOPMENT, chr11q13, EFC_Q6
GO Biological Process (5): cell adhesion (GO:0007155), fibroblast growth factor receptor signaling pathway (GO:0008543), dendrite development (GO:0016358), positive regulation of synapse assembly (GO:0051965), neuron projection extension (GO:1990138)
GO Molecular Function (3): fibroblast growth factor receptor binding (GO:0005104), protein-macromolecule adaptor activity (GO:0030674), protein binding (GO:0005515)
GO Cellular Component (18): obsolete extracellular space (GO:0005615), endoplasmic reticulum membrane (GO:0005789), plasma membrane (GO:0005886), cell-cell junction (GO:0005911), focal adhesion (GO:0005925), cytoplasmic vesicle membrane (GO:0030659), extracellular matrix (GO:0031012), cytoplasmic vesicle (GO:0031410), neuronal cell body membrane (GO:0032809), neuron projection terminus (GO:0044306), perinuclear region of cytoplasm (GO:0048471), extracellular region (GO:0005576), cytoplasm (GO:0005737), endoplasmic reticulum (GO:0005783), membrane (GO:0016020), cell projection (GO:0042995), neuron projection (GO:0043005), anchoring junction (GO:0070161)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Signaling by FGFR1 | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 6 |
| cytoplasm | 3 |
| cellular process | 1 |
| cell surface receptor protein tyrosine kinase signaling pathway | 1 |
| cellular response to fibroblast growth factor stimulus | 1 |
| neuron projection development | 1 |
| anatomical structure development | 1 |
| synapse assembly | 1 |
| positive regulation of nervous system development | 1 |
| regulation of synapse assembly | 1 |
| positive regulation of cell junction assembly | 1 |
| developmental cell growth | 1 |
| neuron projection morphogenesis | 1 |
| developmental growth involved in morphogenesis | 1 |
| growth factor receptor binding | 1 |
| protein binding | 1 |
| molecular adaptor activity | 1 |
| binding | 1 |
| organelle membrane | 1 |
| nuclear outer membrane-endoplasmic reticulum membrane network | 1 |
| endoplasmic reticulum subcompartment | 1 |
| membrane | 1 |
| cell periphery | 1 |
| anchoring junction | 1 |
| cell-substrate junction | 1 |
| vesicle membrane | 1 |
| cytoplasmic vesicle | 1 |
| external encapsulating structure | 1 |
| intracellular vesicle | 1 |
| neuronal cell body | 1 |
| cell body membrane | 1 |
| neuron projection | 1 |
| intracellular anatomical structure | 1 |
| endomembrane system | 1 |
| intracellular membrane-bounded organelle | 1 |
| plasma membrane bounded cell projection | 1 |
| cell junction | 1 |
Protein interactions and networks
STRING
1132 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| FLRT1 | UNC5A | Q6ZN44 | 854 |
| FLRT1 | FN1 | P02751 | 767 |
| FLRT1 | ADGRL1 | O94910 | 605 |
| FLRT1 | NID1 | P14543 | 596 |
| FLRT1 | MACROD2 | A1Z1Q3 | 587 |
| FLRT1 | ROBO1 | Q9Y6N7 | 520 |
| FLRT1 | ERVFRD-1 | P60508 | 492 |
| FLRT1 | ERV3-1 | Q14264 | 492 |
| FLRT1 | ADGRL3 | Q9HAR2 | 478 |
| FLRT1 | UNC5D | Q6UXZ4 | 471 |
| FLRT1 | CNTN3 | Q9P232 | 421 |
| FLRT1 | ADGRL2 | O95490 | 419 |
| FLRT1 | FNDC10 | F2Z333 | 404 |
| FLRT1 | OSTN | P61366 | 401 |
| FLRT1 | PAX6 | P26367 | 387 |
IntAct
9 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| FLRT1 | TCAF2 | psi-mi:“MI:0914”(association) | 0.530 |
| VASN | AP3B1 | psi-mi:“MI:0914”(association) | 0.530 |
| APP | FLRT1 | psi-mi:“MI:0915”(physical association) | 0.400 |
| flrt3 | FLRT1 | psi-mi:“MI:0915”(physical association) | 0.400 |
| FLRT1 | GPR35 | psi-mi:“MI:0915”(physical association) | 0.370 |
| FLRT1 | ADGRL1 | psi-mi:“MI:0914”(association) | 0.350 |
| FLRT1 | FLRT2 | psi-mi:“MI:2364”(proximity) | 0.270 |
BioGRID (57): LPHN3 (Affinity Capture-MS), FLRT3 (Affinity Capture-MS), RADIL (Affinity Capture-MS), PCDH17 (Affinity Capture-MS), LPHN1 (Affinity Capture-MS), PCDHGC3 (Affinity Capture-MS), PIK3CA (Affinity Capture-MS), BLZF1 (Affinity Capture-MS), FAM115C (Affinity Capture-MS), PCDH7 (Affinity Capture-MS), PIK3CB (Affinity Capture-MS), PIK3R1 (Affinity Capture-MS), LPHN2 (Affinity Capture-MS), PIK3R2 (Affinity Capture-MS), PIK3R3 (Affinity Capture-MS)
ESM2 similar proteins: A0N0X6, A4IIW9, B0BLW3, B1H134, B1H234, B4F7C5, D3ZAL8, D3ZTV3, D4A7P2, E5DHB5, F1NUK7, F7D3V9, O43155, O43300, O94898, P58681, Q32Q07, Q3SXY7, Q3URE9, Q504C1, Q50L44, Q52KR2, Q5R482, Q5R6T0, Q5RDJ4, Q61809, Q66HV9, Q6RKD8, Q6UXK5, Q70AK3, Q7L985, Q80XG9, Q80ZD7, Q80ZD8, Q80ZD9, Q86VH4, Q86VH5, Q8BGA3, Q8BGT1, Q8BLU0
Diamond homologs: B1H134, B1H234, D3ZTV3, F1NUK7, G5EFX6, G5EG78, O43155, O88280, P19879, P20774, P24014, P58874, P79119, P83286, Q5R6T0, Q5RAC4, Q5RBL2, Q62000, Q6PEZ8, Q6RKD8, Q70AK3, Q810C1, Q8BGT1, Q8BLU0, Q8MJF1, Q96PX8, Q9DE65, Q9NR97, Q9NZU0, Q9NZU1, Q9UBM4, Q9W6H0, A8WGA3, D4ABX8, O42235, O55226, O60938, O75093, O88279, O94769
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
186 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 121 |
| Likely benign | 43 |
| Benign | 19 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
1379 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 11:64103326:GAC:G | donor_gain | 0.9900 |
| 11:64105934:GGTCC:G | donor_gain | 0.9900 |
| 11:64103439:GCGGG:G | donor_gain | 0.9600 |
| 11:64104995:T:TA | donor_gain | 0.9500 |
| 11:64103581:G:GT | donor_gain | 0.9400 |
| 11:64104180:AGGTA:A | donor_loss | 0.9400 |
| 11:64104181:GG:G | donor_loss | 0.9400 |
| 11:64104182:GTA:G | donor_loss | 0.9400 |
| 11:64104183:T:G | donor_loss | 0.9400 |
| 11:64104996:C:A | donor_gain | 0.9400 |
| 11:64104178:GGAG:G | donor_gain | 0.9300 |
| 11:64104179:GAGG:G | donor_gain | 0.9300 |
| 11:64107589:A:C | acceptor_gain | 0.9300 |
| 11:64103507:A:T | donor_gain | 0.9100 |
| 11:64117884:CA:C | donor_gain | 0.9100 |
| 11:64117885:AA:A | donor_gain | 0.9100 |
| 11:64115776:C:G | donor_gain | 0.8700 |
| 11:64105006:T:TA | donor_gain | 0.8600 |
| 11:64104534:G:GA | donor_gain | 0.8500 |
| 11:64115552:GAAT:G | acceptor_gain | 0.8500 |
| 11:64059546:TCC:T | donor_gain | 0.8400 |
| 11:64103295:G:GT | donor_gain | 0.8400 |
| 11:64104971:A:AC | donor_gain | 0.8400 |
| 11:64069745:G:GC | donor_gain | 0.8300 |
| 11:64103296:A:T | donor_gain | 0.8300 |
| 11:64103574:C:G | donor_gain | 0.8300 |
| 11:64104008:GGC:G | donor_gain | 0.8300 |
| 11:64105935:GTCC:G | donor_gain | 0.8300 |
| 11:64105936:TCCT:T | donor_gain | 0.8300 |
| 11:64104184:AAG:A | donor_loss | 0.8100 |
AlphaMissense
0 scored. Top likely-pathogenic:
dbSNP variants (sampled 300 via entrez): RS1000004213 (11:64088296 C>T), RS1000042637 (11:64076537 G>A,C), RS1000075501 (11:64046752 A>G,T), RS1000087954 (11:64099027 G>A), RS1000111039 (11:64075171 C>A,T), RS1000113862 (11:64083623 G>A), RS1000124498 (11:64060193 C>A,T), RS1000166700 (11:64057719 T>C,G), RS1000175657 (11:64040875 A>G), RS1000187516 (11:64096286 T>C), RS1000242715 (11:64101940 C>A,T), RS1000270937 (11:64115906 A>G), RS1000338494 (11:64088024 G>A), RS1000371817 (11:64109096 C>T), RS1000429424 (11:64048062 CCAGCCTGGCTCTCAGGCCTG>C)
Disease associations
OMIM: gene MIM:604806 | disease phenotypes: MIM:303350
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| spastic paraplegia, optic atropy, and neuropathy | Supportive | Autosomal recessive |
Mondo (3): peripheral neuropathy (MONDO:0005244), hereditary spastic paraplegia (MONDO:0019064), spastic paraplegia, optic atropy, and neuropathy (MONDO:0012297)
Orphanet (1): Hereditary spastic paraplegia (Orphanet:685)
HPO phenotypes
20 total (20 of 20 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000543 | Optic disc pallor |
| HP:0000639 | Nystagmus |
| HP:0000648 | Optic atrophy |
| HP:0000975 | Hyperhidrosis |
| HP:0001260 | Dysarthria |
| HP:0001288 | Gait disturbance |
| HP:0001761 | Pes cavus |
| HP:0002071 | Abnormality of extrapyramidal motor function |
| HP:0002166 | Impaired vibration sensation in the lower limbs |
| HP:0002194 | Delayed gross motor development |
| HP:0002267 | Exaggerated startle response |
| HP:0002600 | Hyporeflexia of lower limbs |
| HP:0002650 | Scoliosis |
| HP:0002828 | Multiple joint contractures |
| HP:0003380 | Decreased number of peripheral myelinated nerve fibers |
| HP:0003477 | Peripheral axonal neuropathy |
| HP:0003693 | Distal amyotrophy |
| HP:0007020 | Progressive spastic paraplegia |
| HP:0007054 | Proximal hyperreflexia |
| HP:0008944 | Distal lower limb amyotrophy |
GWAS associations
12 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001725_12 | Inflammatory bowel disease | 4.000000e-11 |
| GCST010136_47 | Fruit consumption | 9.000000e-10 |
| GCST010637_32 | Urate levels | 1.000000e-09 |
| GCST011345_16 | Triglyceride levels | 1.000000e-08 |
| GCST90020024_386 | A body shape index | 5.000000e-08 |
| GCST90020025_1864 | Waist-to-hip ratio adjusted for BMI | 2.000000e-09 |
| GCST90020025_1868 | Waist-to-hip ratio adjusted for BMI | 3.000000e-09 |
| GCST90020025_1871 | Waist-to-hip ratio adjusted for BMI | 2.000000e-12 |
| GCST90020027_1485 | Waist-hip index | 2.000000e-09 |
| GCST90020027_1487 | Waist-hip index | 3.000000e-09 |
| GCST90020027_1488 | Waist-hip index | 4.000000e-12 |
| GCST90020029_321 | Waist circumference adjusted for body mass index | 3.000000e-08 |
EFO canonical traits (5, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0008111 | diet measurement |
| EFO:0004531 | urate measurement |
| EFO:0004530 | triglyceride measurement |
| EFO:0007789 | BMI-adjusted waist circumference |
| EFO:0007788 | BMI-adjusted waist-hip ratio |
MeSH disease descriptors (2)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D015419 | Spastic Paraplegia, Hereditary | C10.500.300.820; C10.574.500.495.820; C10.668.829.800.300.820; C16.131.666.300.820; C16.320.400.375.820 |
| C563702 | Spastic Paraplegia, Optic Atrophy, and Neuropathy (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
19 total (human), top 19 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| trichostatin A | affects cotreatment, increases expression | 3 |
| Nickel | decreases expression | 2 |
| Tretinoin | decreases expression | 2 |
| entinostat | 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 | affects cotreatment, increases expression | 1 |
| jinfukang | affects cotreatment, increases expression | 1 |
| Resveratrol | affects cotreatment, decreases expression | 1 |
| Cisplatin | increases expression, affects cotreatment | 1 |
| Estradiol | affects expression | 1 |
| Plant Extracts | decreases expression, affects cotreatment | 1 |
| Tamoxifen | affects expression | 1 |
| Tobacco Smoke Pollution | decreases expression | 1 |
| Triclosan | increases expression | 1 |
| Valproic Acid | affects expression | 1 |
| Cyclosporine | increases expression | 1 |
| Okadaic Acid | increases expression | 1 |
| Raloxifene Hydrochloride | affects expression | 1 |
| S-Nitrosoglutathione | decreases expression | 1 |
Clinical trials (associated diseases)
300 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00380965 | PHASE4 | COMPLETED | Evaluation of the Efficacy of Cesamet™ for the Treatment of Pain in Patients With Chemotherapy-Induced Neuropathy |
| NCT00487981 | PHASE4 | TERMINATED | Spinal Cord Stimulation for Painful Diabetic Neuropathy |
| NCT00904202 | PHASE4 | COMPLETED | A Study Of Lidocaine Patch 5% Alone, Gabapentin Alone, And Lidocaine Patch 5% And Gabapentin In Combination For The Relief Of Pain In Patients With Diverse Peripheral Neuropathic Pain Conditions |
| NCT01192113 | PHASE4 | COMPLETED | Safety and Efficacy of Mecobalamin Injection in Peripheral Neuropathies Patients (Study JGAZSY091109) |
| NCT01373983 | PHASE4 | COMPLETED | Intrathecal Bolus Doses of Ziconotide |
| NCT01458015 | PHASE4 | TERMINATED | Tapentadol Versus Oxycodone - a Mechanism-based Treatment Approach in Neuropathic Pain |
| NCT02074267 | PHASE4 | COMPLETED | Clinical Study for Assessment of the Efficacy of Gabapentin (Carbatin and Neurontin) in Patients With Neuropathy Pain |
| NCT02372149 | PHASE4 | UNKNOWN | IVIg for Demyelination in Diabetes Mellitus |
| NCT02670161 | PHASE4 | ENROLLING_BY_INVITATION | Quality Improvement and Practice Based Research in Neurology Using the EMR |
| NCT07022938 | PHASE4 | COMPLETED | Nutritional Supplement for Treating Chemotherapy Induced Neuropathy |
| NCT07025005 | PHASE4 | RECRUITING | Fenofibrate Role in the Prophylaxis From Peripheral Neuropathy Induced by Bortezomib, Lenalidomide and Dexamethasone (VRd) Protocol in the Treatment of Patients With Multiple Myeloma (MM) |
| NCT00058071 | PHASE3 | COMPLETED | Amifostine in Treating Peripheral Neuropathy in Patients Who Have Received Chemotherapy for Cancer |
| NCT00125268 | PHASE3 | TERMINATED | Near Infrared Light for the Treatment of Painful Peripheral Neuropathy |
| NCT00195013 | PHASE3 | COMPLETED | Randomized Placebo-Controlled Trial of Glutamine for Breast Cancer Patients With Peripheral Neuropathy |
| NCT00232141 | PHASE3 | COMPLETED | Study of Pregabalin Versus Placebo in the Treatment of Nerve Pain Associated With HIV Neuropathy |
| NCT00264875 | PHASE3 | COMPLETED | Open Label Safety And Efficacy Study Of Pregabalin In Subjects With Nerve Pain Asociated With Human Immunodeficiency Virus (HIV) Neuropathy |
| NCT00369564 | PHASE3 | COMPLETED | Glutamic Acid in Reducing Nerve Damage Caused by Vincristine in Young Patients With Cancer |
| NCT00471445 | PHASE3 | COMPLETED | Topical Amitriptyline and Ketamine Cream in Treating Peripheral Neuropathy Caused by Chemotherapy in Cancer Patients |
| NCT00489411 | PHASE3 | COMPLETED | Duloxetine in Treating Peripheral Neuropathy Caused by Chemotherapy in Patients With Cancer |
| NCT00710554 | PHASE3 | COMPLETED | A Study of Sativex® for Pain Relief of Peripheral Neuropathic Pain, Associated With Allodynia |
| NCT00711880 | PHASE3 | COMPLETED | A Study of Sativex® for Relief of Peripheral Neuropathic Pain Associated With Allodynia. |
| NCT00713323 | PHASE3 | COMPLETED | A Study to Compare the Safety and Tolerability of Sativex® in Patients With Neuropathic Pain. |
| NCT00713817 | PHASE3 | COMPLETED | A Study to Determine the Maintenance of Effect After Long-term Treatment of Sativex® in Subjects With Neuropathic Pain |
| NCT00775645 | PHASE3 | COMPLETED | S0715: Acetyl-L-Carnitine in Preventing Neuropathy in Women With Stage I, II, or IIIA Breast Cancer Undergoing Chemo |
| NCT00872352 | PHASE3 | UNKNOWN | Evaluation of Bortezomib Induced Peripheral Neuropathy of Multiple Myeloma (MM) Patients |
| NCT00998738 | PHASE3 | TERMINATED | Calcium and Magnesium in Preventing Peripheral Neuropathy Caused by Ixabepilone in Patients With Breast Cancer |
| NCT01049217 | PHASE3 | TERMINATED | Pregabalin Versus Placebo In The Treatment Of Neuropathic Pain Associated With HIV Neuropathy |
| NCT01099449 | PHASE3 | COMPLETED | Calcium Gluconate and Magnesium Sulfate in Preventing Neurotoxicity in Patients With Colon Cancer or Rectal Cancer Receiving Oxaliplatin-Based Combination Chemotherapy |
| NCT01288937 | PHASE3 | TERMINATED | A Placebo Controlled, Randomized, Double Blind Trial of Milnacipran for the Treatment of Idiopathic Neuropathy Pain |
| NCT01492920 | PHASE3 | WITHDRAWN | Acetyl-L-Carnitine Hydrochloride in Preventing Peripheral Neuropathy in Patients With Recurrent Ovarian Epithelial Cancer, Primary Peritoneal Cavity Cancer, or Fallopian Tube Cancer Undergoing Chemotherapy |
| NCT01775449 | PHASE3 | COMPLETED | Prevention of Oxaliplatin-induced Neuropathic Pain by a Specific Diet |
| NCT02024191 | PHASE3 | UNKNOWN | The Role of Glutamine for Preventing Oxaliplatin-Induced Peripheral Neuropathy |
| NCT02217267 | PHASE3 | COMPLETED | Long Term Outcome After Serial Lidocaine Infusion in Peripheral Neuropathic Pain |
| NCT02294149 | PHASE3 | UNKNOWN | Vit D3 and Omega 3 in Chemo Induced Neuropathy |
| NCT02311907 | PHASE3 | COMPLETED | Glutathione in Preventing Peripheral Neuropathy Caused by Paclitaxel and Carboplatin in Patients With Ovarian Cancer, Fallopian Tube Cancer, and/or Primary Peritoneal Cancer |
| NCT06071936 | PHASE3 | UNKNOWN | Efficacy and Tolerability of AP707 in Patients With Chronic Pain Due to Traumatic or Post-operative Peripheral Neuropathy |
| NCT06071975 | PHASE3 | UNKNOWN | Long Term Efficacy and Tolerability of AP707 in Patients With Chronic Pain Due to Diabetic Polyneuropathy |
| NCT06071988 | PHASE3 | UNKNOWN | Long Term Efficacy and Tolerability of AP707 in Patients With Chronic Pain Due to Traumatic or Post-operative Peripheral Neuropathy |
| NCT06072573 | PHASE3 | UNKNOWN | Efficacy and Tolerability of AP707 in Patients With Chronic Pain Due to Diabetic Polyneuropathy |
| NCT07287592 | PHASE3 | NOT_YET_RECRUITING | Glutamine for the Prophylaxis of Vincristine-induced Neuropathy in Children and Adolescents With Cancer. |
Related Atlas pages
- Associated diseases: spastic paraplegia, optic atropy, and neuropathy
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): hereditary spastic paraplegia, spastic paraplegia, optic atropy, and neuropathy