LRFN2
geneOn this page
Also known as FIGLER2
Summary
LRFN2 (leucine rich repeat and fibronectin type III domain containing 2, HGNC:21226) is a protein-coding gene on chromosome 6p21.2-p21.1, encoding Leucine-rich repeat and fibronectin type-III domain-containing protein 2 (Q9ULH4). Promotes neurite outgrowth in hippocampal neurons.
Predicted to be involved in modulation of chemical synaptic transmission and regulation of postsynapse organization. Predicted to be located in plasma membrane. Predicted to be active in several cellular components, including Schaffer collateral - CA1 synapse; cell surface; and postsynaptic density membrane.
Source: NCBI Gene 57497 — RefSeq curated summary.
At a glance
- GWAS associations: 24
- Clinical variants (ClinVar): 115 total
- MANE Select transcript:
NM_020737
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:21226 |
| Approved symbol | LRFN2 |
| Name | leucine rich repeat and fibronectin type III domain containing 2 |
| Location | 6p21.2-p21.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | FIGLER2 |
| Ensembl gene | ENSG00000156564 |
| Ensembl biotype | protein_coding |
| OMIM | 612808 |
| Entrez | 57497 |
Gene structure
Transcript identifiers
Ensembl transcripts: 2 — 2 protein_coding
ENST00000338305, ENST00000700335
RefSeq mRNA: 1 — MANE Select: NM_020737
NM_020737
CCDS: CCDS34443
Canonical transcript exons
ENST00000338305 — 3 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001374558 | 40431714 | 40433131 |
| ENSE00001459695 | 40391591 | 40392912 |
| ENSE00001459698 | 40586941 | 40587364 |
Expression profiles
Bgee: expression breadth broad, 66 present calls, max score 79.44.
FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.9888 / max 66.9200, expressed in 129 samples.
FANTOM5 promoters (6 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 73510 | 0.7419 | 115 |
| 73511 | 0.0869 | 45 |
| 73508 | 0.0470 | 13 |
| 73507 | 0.0448 | 14 |
| 73509 | 0.0382 | 29 |
| 73512 | 0.0302 | 21 |
Top tissues by expression
227 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| cortical plate | UBERON:0005343 | 79.44 | gold quality |
| prefrontal cortex | UBERON:0000451 | 75.82 | gold quality |
| right frontal lobe | UBERON:0002810 | 73.92 | gold quality |
| Brodmann (1909) area 9 | UBERON:0013540 | 73.75 | gold quality |
| dorsolateral prefrontal cortex | UBERON:0009834 | 71.60 | gold quality |
| islet of Langerhans | UBERON:0000006 | 71.53 | gold quality |
| frontal cortex | UBERON:0001870 | 71.37 | gold quality |
| anterior cingulate cortex | UBERON:0009835 | 71.34 | gold quality |
| neocortex | UBERON:0001950 | 70.69 | gold quality |
| cerebral cortex | UBERON:0000956 | 67.28 | gold quality |
| amygdala | UBERON:0001876 | 65.28 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 65.13 | gold quality |
| cerebellar cortex | UBERON:0002129 | 64.81 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 64.78 | gold quality |
| hypothalamus | UBERON:0001898 | 64.19 | gold quality |
| cerebellum | UBERON:0002037 | 63.29 | gold quality |
| Ammon’s horn | UBERON:0001954 | 59.83 | gold quality |
| temporal lobe | UBERON:0001871 | 59.73 | gold quality |
| forebrain | UBERON:0001890 | 59.51 | gold quality |
| brain | UBERON:0000955 | 59.45 | gold quality |
| superior frontal gyrus | UBERON:0002661 | 57.98 | gold quality |
| primary visual cortex | UBERON:0002436 | 57.12 | gold quality |
| ganglionic eminence | UBERON:0004023 | 57.01 | gold quality |
| postcentral gyrus | UBERON:0002581 | 55.85 | silver quality |
| substantia nigra | UBERON:0002038 | 54.03 | gold quality |
| heart right ventricle | UBERON:0002080 | 54.03 | gold quality |
| parietal lobe | UBERON:0001872 | 53.36 | silver quality |
| occipital lobe | UBERON:0002021 | 53.25 | gold quality |
| entorhinal cortex | UBERON:0002728 | 52.97 | silver quality |
| nasal cavity epithelium | UBERON:0005384 | 52.55 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 1.64 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
47 targeting LRFN2, 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-30A-5P | 100.00 | 76.31 | 3233 |
| HSA-MIR-30B-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30C-5P | 100.00 | 76.29 | 3248 |
| HSA-MIR-30D-5P | 100.00 | 76.32 | 3233 |
| HSA-MIR-30E-5P | 100.00 | 76.32 | 3242 |
| HSA-MIR-6748-5P | 100.00 | 65.81 | 1057 |
| HSA-MIR-6825-5P | 99.96 | 69.81 | 3431 |
| HSA-MIR-221-3P | 99.86 | 71.56 | 1329 |
| HSA-MIR-222-3P | 99.86 | 71.35 | 1337 |
| HSA-MIR-4495 | 99.82 | 72.08 | 3080 |
| HSA-MIR-4319 | 99.76 | 69.83 | 2586 |
| HSA-MIR-92A-2-5P | 99.75 | 67.01 | 2164 |
| HSA-MIR-670-5P | 99.67 | 69.94 | 1565 |
| HSA-MIR-3175 | 99.65 | 66.30 | 2031 |
| HSA-MIR-24-3P | 99.59 | 69.97 | 1934 |
| HSA-MIR-4261 | 99.59 | 70.30 | 3415 |
| HSA-MIR-4437 | 99.52 | 65.29 | 1266 |
| HSA-MIR-4441 | 99.49 | 66.56 | 3216 |
| HSA-MIR-125A-5P | 99.36 | 70.59 | 1640 |
| HSA-MIR-125B-5P | 99.36 | 70.36 | 1662 |
| HSA-MIR-532-3P | 99.34 | 65.76 | 1195 |
| HSA-MIR-499A-3P | 99.18 | 69.20 | 1392 |
| HSA-MIR-499B-3P | 99.18 | 69.27 | 1391 |
| HSA-MIR-6799-5P | 99.14 | 65.72 | 2093 |
| HSA-MIR-491-5P | 99.13 | 65.98 | 1468 |
| HSA-MIR-8070 | 99.07 | 69.30 | 1303 |
| HSA-MIR-4270 | 99.02 | 66.26 | 1987 |
| HSA-MIR-6760-5P | 98.87 | 66.73 | 1515 |
| HSA-MIR-5006-5P | 98.79 | 66.92 | 1246 |
| HSA-MIR-6769B-5P | 98.73 | 64.91 | 1092 |
Literature-anchored findings (GeneRIF, showing 7)
- enrichment of SALM1 on the cell surface affects dendritic arborization, and intracellular motifs regulate its dendritic versus axonal localization. (PMID:22174418)
- Microdeletion encompassing LRFN2 gene segregates with working memory deficits and learning disabilities in three family members. (PMID:26486473)
- study demonstrated that the polymorphisms rs2494938 at 6p21.1 and rs2285947 at 7p15.3 may serve as independent prognostic biomarkers for ESCC, implying the potential biological role of their related genes (LRFN2 and DNAH11) in the process of ESCC development (PMID:31053115)
- No significant association of variant rs2494938 of LRFN2 was observed with ovarian canceror breast cancer in a cohort of women in India. (PMID:31605628)
- LRFN2 gene variant rs2494938 provides susceptibility to esophageal cancer in the population of Jammu and Kashmir. (PMID:32880595)
- LRFN2 binding to NMDAR inhibits the progress of ESCC via regulating the Wnt/beta-Catenin and NF-kappaB signaling pathway. (PMID:35879265)
- Bladder cancer intrinsic LRFN2 drives anticancer immunotherapy resistance by attenuating CD8[+] T cell infiltration and functional transition. (PMID:37802603)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | lrfn2b | ENSDARG00000077489 |
| danio_rerio | LRFN2 | ENSDARG00000106248 |
| mus_musculus | Lrfn2 | ENSMUSG00000040490 |
| rattus_norvegicus | Lrfn2 | ENSRNOG00000011803 |
Paralogs (25): SLITRK3 (ENSG00000121871), LRFN3 (ENSG00000126243), LRFN1 (ENSG00000128011), SLIT2 (ENSG00000145147), LRRC38 (ENSG00000162494), SLITRK5 (ENSG00000165300), LRFN5 (ENSG00000165379), LRTM2 (ENSG00000166159), LINGO1 (ENSG00000169783), LRRN2 (ENSG00000170382), LRRN3 (ENSG00000173114), LRFN4 (ENSG00000173621), LINGO2 (ENSG00000174482), LRRN1 (ENSG00000175928), SLITRK1 (ENSG00000178235), GP5 (ENSG00000178732), SLITRK4 (ENSG00000179542), LRRC55 (ENSG00000183908), SLIT3 (ENSG00000184347), SLITRK6 (ENSG00000184564), SLITRK2 (ENSG00000185985), LRRC70 (ENSG00000186105), SLIT1 (ENSG00000187122), TLR9 (ENSG00000239732), TPBGL (ENSG00000261594)
Protein
Protein identifiers
Leucine-rich repeat and fibronectin type-III domain-containing protein 2 — Q9ULH4 (reviewed: Q9ULH4)
Alternative names: Synaptic adhesion-like molecule 1
All UniProt accessions (2): Q9ULH4, A0A8V8TQ63
UniProt curated annotations — full annotation on UniProt →
Function. Promotes neurite outgrowth in hippocampal neurons. Enhances the cell surface expression of 2 NMDA receptor subunits GRIN1 and GRIN2A. May play a role in redistributing DLG4 to the cell periphery.
Subunit / interactions. Forms heteromeric complexes with LRFN1, LRFN3, LRFN4 and LRFN5. Can form homomeric complexes, but not across cell junctions. Directly interacts with 2 NMDA receptor subunits GRIN1 and GRIN2A. Interacts with DLG1, DLG2, DLG3 and DLG4.
Subcellular location. Membrane. Synapse. Postsynaptic cell membrane.
Post-translational modifications. Glycosylated.
Domain organisation. The PDZ-binding motif is required for cell surface expression, neurite outgrowth promotion. This motif is also involved in DLG1-, DLG3- and DLG4-binding.
Similarity. Belongs to the LRFN family.
RefSeq proteins (1): NP_065788* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000483 | Cys-rich_flank_reg_C | Domain |
| IPR001611 | Leu-rich_rpt | Repeat |
| IPR003591 | Leu-rich_rpt_typical-subtyp | Repeat |
| IPR003598 | Ig_sub2 | Domain |
| IPR003599 | Ig_sub | Domain |
| IPR003961 | FN3_dom | Domain |
| IPR007110 | Ig-like_dom | Domain |
| IPR013098 | Ig_I-set | Domain |
| IPR013783 | Ig-like_fold | Homologous_superfamily |
| IPR032675 | LRR_dom_sf | Homologous_superfamily |
| IPR036116 | FN3_sf | Homologous_superfamily |
| IPR036179 | Ig-like_dom_sf | Homologous_superfamily |
| IPR050467 | LRFN | Family |
Pfam: PF00041, PF07679, PF13855
UniProt features (32 total): repeat 7, domain 4, region of interest 4, compositionally biased region 4, glycosylation site 4, topological domain 2, signal peptide 1, chain 1, short sequence motif 1, disulfide bond 1, transmembrane region 1, sequence variant 1, mutagenesis site 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9ULH4-F1 | 70.36 | 0.45 |
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 (1): 310–359
Glycosylation sites (4): 29, 332, 341, 384
Mutagenesis-validated functional residues (1):
| Position | Phenotype |
|---|---|
| 787–789 | loss of dlg1-, dlg3- and dlg4-binding. |
Function
Pathways and Gene Ontology
Reactome pathways
3 pathways
| ID | Pathway |
|---|---|
| R-HSA-8849932 | Synaptic adhesion-like molecules |
| R-HSA-112316 | Neuronal System |
| R-HSA-6794362 | Protein-protein interactions at synapses |
MSigDB gene sets: 77 (showing top):
BENPORATH_ES_WITH_H3K27ME3, GOCC_CELL_SURFACE, GOBP_CELL_CELL_SIGNALING, GOBP_CELL_JUNCTION_ORGANIZATION, SCHAEFFER_PROSTATE_DEVELOPMENT_48HR_DN, GOBP_SYNAPTIC_SIGNALING, GOBP_REGULATION_OF_SYNAPSE_STRUCTURE_OR_ACTIVITY, TGTTTAC_MIR30A5P_MIR30C_MIR30D_MIR30B_MIR30E5P, GOCC_POSTSYNAPSE, CTGAGCC_MIR24, GOCC_SYNAPSE, GOCC_POSTSYNAPTIC_MEMBRANE, GOCC_PLASMA_MEMBRANE_REGION, GOCC_PRESYNAPSE, GOCC_SYNAPTIC_MEMBRANE
GO Biological Process (2): modulation of chemical synaptic transmission (GO:0050804), regulation of postsynapse organization (GO:0099175)
GO Molecular Function (1): protein binding (GO:0005515)
GO Cellular Component (9): plasma membrane (GO:0005886), cell surface (GO:0009986), Schaffer collateral - CA1 synapse (GO:0098685), presynapse (GO:0098793), postsynaptic density membrane (GO:0098839), membrane (GO:0016020), synapse (GO:0045202), postsynaptic membrane (GO:0045211), postsynapse (GO:0098794)
Reactome top-level categories
Rollup of top-2 pathways:
| Category | Pathways |
|---|---|
| Protein-protein interactions at synapses | 1 |
| Neuronal System | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 4 |
| synapse | 3 |
| chemical synaptic transmission | 1 |
| regulation of trans-synaptic signaling | 1 |
| regulation of synapse organization | 1 |
| postsynapse organization | 1 |
| binding | 1 |
| membrane | 1 |
| cell periphery | 1 |
| postsynaptic density | 1 |
| postsynaptic membrane | 1 |
| postsynaptic specialization membrane | 1 |
| cell junction | 1 |
| synaptic membrane | 1 |
| postsynapse | 1 |
Protein interactions and networks
STRING
1762 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| LRFN2 | DLG4 | P78352 | 881 |
| LRFN2 | DLG3 | Q92796 | 876 |
| LRFN2 | DLG1 | Q12959 | 860 |
| LRFN2 | GRIN1 | P35437 | 720 |
| LRFN2 | FN1 | P02751 | 605 |
| LRFN2 | UNC5CL | Q8IV45 | 570 |
| LRFN2 | GRIN2A | Q12879 | 542 |
| LRFN2 | PRTG | Q2VWP7 | 540 |
| LRFN2 | C6orf132 | Q5T0Z8 | 506 |
| LRFN2 | PTPRF | P10586 | 485 |
| LRFN2 | PTPRS | Q13332 | 422 |
| LRFN2 | IGSF11 | Q5DX21 | 406 |
| LRFN2 | DAAM2 | Q86T65 | 405 |
| LRFN2 | TUFT1 | Q9NNX1 | 403 |
| LRFN2 | MOCS1 | Q9NZB8 | 399 |
| LRFN2 | GRIN3A | Q8TCU5 | 399 |
IntAct
7 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| LRFN2 | PTPRD | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| LRFN2 | PTPRF | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| PTPRS | LRFN2 | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| VEZT | S100A11 | psi-mi:“MI:0914”(association) | 0.350 |
| PNPT1 | PDE12 | psi-mi:“MI:0914”(association) | 0.350 |
| LRFN2 | LRFN4 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (9): LRFN2 (Affinity Capture-RNA), LRFN4 (Affinity Capture-MS), LRFN2 (Affinity Capture-MS), LRFN2 (Affinity Capture-MS), ACAD11 (Affinity Capture-MS), LRFN2 (Two-hybrid), LRFN2 (Cross-Linking-MS (XL-MS)), LRFN2 (Affinity Capture-RNA), LRFN2 (Affinity Capture-MS)
ESM2 similar proteins: A1XQX1, A1XQX3, A1XQY0, A8WGA3, C6K2K4, D0PRN2, D0PRN4, D4A1J9, E9PUN2, O13097, O42596, O73612, O73874, P0DI97, P52795, P52796, P58400, P58401, P98172, Q01974, Q0PMD2, Q17QD6, Q28142, Q28143, Q460M5, Q63373, Q63376, Q6NW40, Q6PCX7, Q6PFE7, Q7TQ33, Q80TG9, Q8BNJ6, Q8BXA0, Q8C985, Q8IYR6, Q8NC67, Q91590, Q96B86, Q96NI6
Diamond homologs: A0A1Y9G8H0, A0A452E9Y6, A1KZ92, A2A8L5, A2AJ76, A4IFW2, A4IGL7, A4IIW9, A5JUY8, A7MBJ4, A8WGA3, A8WQH2, B0BNK7, B3A0P3, D2HFT7, D3YXG0, D4A1J9, D4ABX8, G5EBF1, G5EG78, H2A0M7, O15146, O35158, O55005, O89026, P05164, P07202, P09933, P0C6S8, P0C7J6, P11247, P11678, P14650, P16621, P22079, P23468, P35419, P49290, P70193, P80025
SIGNOR signaling
2 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| DLG4 | “up-regulates activity” | LRFN2 | binding |
| LRFN2 | up-regulates | Neurite_outgrowth |
Disease & clinical
Clinical variants and AI predictions
ClinVar
115 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 107 |
| Likely benign | 3 |
| Benign | 1 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
1418 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 6:40392908:TCATC:T | acceptor_gain | 1.0000 |
| 6:40392909:CATCC:C | acceptor_gain | 1.0000 |
| 6:40392910:ATC:A | acceptor_gain | 1.0000 |
| 6:40392911:TC:T | acceptor_gain | 1.0000 |
| 6:40392912:CC:C | acceptor_gain | 1.0000 |
| 6:40392913:C:CA | acceptor_loss | 1.0000 |
| 6:40392913:C:CC | acceptor_gain | 1.0000 |
| 6:40433127:AGCGC:A | acceptor_gain | 1.0000 |
| 6:40433128:GCGC:G | acceptor_gain | 1.0000 |
| 6:40433129:CGC:C | acceptor_gain | 1.0000 |
| 6:40433129:CGCC:C | acceptor_gain | 1.0000 |
| 6:40433130:GC:G | acceptor_gain | 1.0000 |
| 6:40433131:CC:C | acceptor_gain | 1.0000 |
| 6:40433132:C:CC | acceptor_gain | 1.0000 |
| 6:40433133:T:G | acceptor_loss | 1.0000 |
| 6:40392909:CATC:C | acceptor_gain | 0.9900 |
| 6:40433132:C:T | acceptor_gain | 0.9900 |
| 6:40455918:AGC:A | donor_gain | 0.9800 |
| 6:40586936:CTCA:C | donor_loss | 0.9800 |
| 6:40586937:TCACC:T | donor_loss | 0.9800 |
| 6:40586938:CAC:C | donor_loss | 0.9800 |
| 6:40586939:A:T | donor_loss | 0.9800 |
| 6:40586940:C:CG | donor_loss | 0.9800 |
| 6:40392910:ATCCT:A | acceptor_gain | 0.9700 |
| 6:40392911:TCCT:T | acceptor_gain | 0.9700 |
| 6:40392913:C:T | acceptor_gain | 0.9700 |
| 6:40392925:G:C | acceptor_gain | 0.9700 |
| 6:40407741:C:CT | donor_gain | 0.9700 |
| 6:40431713:C:CG | donor_loss | 0.9700 |
| 6:40392912:CCT:C | acceptor_gain | 0.9600 |
AlphaMissense
5129 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 6:40431794:C:A | W440C | 1.000 |
| 6:40431794:C:G | W440C | 1.000 |
| 6:40431796:A:G | W440R | 1.000 |
| 6:40431796:A:T | W440R | 1.000 |
| 6:40432037:G:C | C359W | 1.000 |
| 6:40432038:C:T | C359Y | 1.000 |
| 6:40432039:A:G | C359R | 1.000 |
| 6:40432083:A:G | L344P | 1.000 |
| 6:40432148:C:A | W322C | 1.000 |
| 6:40432148:C:G | W322C | 1.000 |
| 6:40432150:A:G | W322R | 1.000 |
| 6:40432150:A:T | W322R | 1.000 |
| 6:40432185:C:G | C310S | 1.000 |
| 6:40432186:A:G | C310R | 1.000 |
| 6:40432186:A:T | C310S | 1.000 |
| 6:40432388:G:C | N242K | 1.000 |
| 6:40432388:G:T | N242K | 1.000 |
| 6:40432493:A:C | N207K | 1.000 |
| 6:40432493:A:T | N207K | 1.000 |
| 6:40432565:G:C | N183K | 1.000 |
| 6:40432565:G:T | N183K | 1.000 |
| 6:40432637:G:C | N159K | 1.000 |
| 6:40432637:G:T | N159K | 1.000 |
| 6:40432638:T:A | N159I | 1.000 |
| 6:40432653:A:G | L154P | 1.000 |
| 6:40432712:G:C | N134K | 1.000 |
| 6:40432712:G:T | N134K | 1.000 |
| 6:40432728:A:G | L129P | 1.000 |
| 6:40432784:A:C | N110K | 1.000 |
| 6:40432784:A:T | N110K | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000002099 (6:40424579 C>T), RS1000002458 (6:40399415 CTTTT>C), RS1000002717 (6:40497002 G>A), RS1000017873 (6:40578032 C>A,T), RS1000056896 (6:40419601 A>G), RS1000084304 (6:40461335 G>C), RS1000084971 (6:40522232 A>C), RS1000085564 (6:40548346 C>T), RS1000095468 (6:40399085 A>G), RS1000114807 (6:40577101 T>A,C), RS1000116597 (6:40548179 C>T), RS1000166124 (6:40441168 G>A), RS1000172821 (6:40554760 C>G,T), RS1000179249 (6:40585947 C>T), RS1000181756 (6:40518046 C>T)
Disease associations
OMIM: gene MIM:612808 | disease phenotypes:
GenCC curated gene-disease
Mondo (0):
Orphanet (0):
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
24 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001718_2 | Multiple cancers (lung cancer, gastric cancer, and squamous cell carcinoma) | 2.000000e-06 |
| GCST001718_3 | Multiple cancers (lung cancer, gastric cancer, and squamous cell carcinoma) | 5.000000e-09 |
| GCST001718_4 | Multiple cancers (lung cancer, gastric cancer, and squamous cell carcinoma) | 1.000000e-12 |
| GCST001762_524 | Obesity-related traits | 8.000000e-06 |
| GCST001762_653 | Obesity-related traits | 3.000000e-06 |
| GCST002283_3 | Amyotrophic lateral sclerosis (sporadic) | 9.000000e-09 |
| GCST003431_2 | Incident coronary heart disease | 2.000000e-06 |
| GCST004065_16 | Waist circumference | 6.000000e-06 |
| GCST004065_17 | Waist circumference | 2.000000e-08 |
| GCST004557_55 | Body mass index | 8.000000e-08 |
| GCST004558_239 | Body mass index (joint analysis main effects and physical activity interaction) | 3.000000e-08 |
| GCST004559_125 | Body mass index in physically active individuals | 2.000000e-06 |
| GCST004559_167 | Body mass index in physically active individuals | 2.000000e-08 |
| GCST004766_9 | Triglyceride change in response to fenofibrate in statin-treated type 2 diabetes | 2.000000e-08 |
| GCST004904_74 | Body mass index | 7.000000e-10 |
| GCST005830_54 | Hand grip strength | 1.000000e-08 |
| GCST006979_278 | Heel bone mineral density | 2.000000e-09 |
| GCST007324_17 | Adventurousness | 2.000000e-09 |
| GCST007325_92 | General risk tolerance (MTAG) | 1.000000e-10 |
| GCST008155_77 | Waist-hip ratio | 5.000000e-06 |
| GCST008159_27 | Waist-to-hip ratio adjusted for BMI | 6.000000e-06 |
| GCST009379_50 | Type 2 diabetes | 9.000000e-10 |
| GCST010988_361 | Adult body size | 4.000000e-20 |
| GCST011743_42 | HDL cholesterol levels in HIV infection | 3.000000e-06 |
EFO canonical traits (10, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004612 | high density lipoprotein cholesterol measurement |
| EFO:0004530 | triglyceride measurement |
| EFO:0004340 | body mass index |
| EFO:0008002 | physical activity measurement |
| EFO:0007681 | triglyceride change measurement |
| EFO:0006941 | grip strength measurement |
| EFO:0009270 | heel bone mineral density |
| EFO:0008579 | risk-taking behaviour |
| EFO:0004343 | waist-hip ratio |
| 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
7 total (human), top 7 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| ethyl-p-hydroxybenzoate | decreases expression | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| Benzo(a)pyrene | decreases methylation, increases methylation | 1 |
| Calcitriol | decreases expression, affects cotreatment | 1 |
| Estradiol | decreases expression | 1 |
| Testosterone | affects cotreatment, decreases expression | 1 |
| Tretinoin | decreases expression | 1 |
Clinical trials (associated diseases)
0 trials via MONDO — disease-level, not drug-specific.
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): gastric carcinoma, sporadic amyotrophic lateral sclerosis, squamous cell carcinoma