FBXW4
gene geneOn this page
Also known as Fbw4dactylin
Summary
FBXW4 (F-box and WD repeat domain containing 4, HGNC:10847) is a protein-coding gene on chromosome 10q24.32, encoding F-box/WD repeat-containing protein 4 (P57775). Probably recognizes and binds to some phosphorylated proteins and promotes their ubiquitination and degradation.
This gene is a member of the F-box/WD-40 gene family, which recruit specific target proteins through their WD-40 protein-protein binding domains for ubiquitin mediated degradation. In mouse, a highly similar protein is thought to be responsible for maintaining the apical ectodermal ridge of developing limb buds; disruption of the mouse gene results in the absence of central digits, underdeveloped or absent metacarpal/metatarsal bones and syndactyly. This phenotype is remarkably similar to split hand-split foot malformation in humans, a clinically heterogeneous condition with a variety of modes of transmission. An autosomal recessive form has been mapped to the chromosomal region where this gene is located, and complex rearrangements involving duplications of this gene and others have been associated with the condition. A pseudogene of this locus has been mapped to one of the introns of the BCR gene on chromosome 22.
Source: NCBI Gene 6468 — RefSeq curated summary.
At a glance
- Gene–disease (curated): split hand-foot malformation 3 (Limited, GenCC)
- GWAS associations: 1
- Clinical variants (ClinVar): 147 total — 1 pathogenic
- Phenotypes (HPO): 8
- Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_022039
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:10847 |
| Approved symbol | FBXW4 |
| Name | F-box and WD repeat domain containing 4 |
| Location | 10q24.32 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | Fbw4, dactylin |
| Ensembl gene | ENSG00000107829 |
| Ensembl biotype | protein_coding |
| OMIM | 608071 |
| Entrez | 6468 |
Gene structure
Transcript identifiers
Ensembl transcripts: 13 — 9 protein_coding, 3 protein_coding_CDS_not_defined, 1 retained_intron
ENST00000331272, ENST00000457105, ENST00000470093, ENST00000482428, ENST00000489578, ENST00000664783, ENST00000919944, ENST00000919945, ENST00000919946, ENST00000945850, ENST00000945851, ENST00000945852, ENST00000945853
RefSeq mRNA: 2 — MANE Select: NM_022039
NM_001323541, NM_022039
CCDS: CCDS31271
Canonical transcript exons
ENST00000331272 — 9 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001333590 | 101694381 | 101695170 |
| ENSE00002290987 | 101624745 | 101624810 |
| ENSE00003465345 | 101612337 | 101612477 |
| ENSE00003474993 | 101611628 | 101611769 |
| ENSE00003477983 | 101673488 | 101673673 |
| ENSE00003541215 | 101672915 | 101673047 |
| ENSE00003637643 | 101676341 | 101676436 |
| ENSE00003666781 | 101610666 | 101611410 |
| ENSE00003678265 | 101667886 | 101667980 |
Expression profiles
Bgee: expression breadth ubiquitous, 281 present calls, max score 97.99.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 7.7908 / max 215.6569, expressed in 1707 samples.
FANTOM5 promoters (2 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 111094 | 7.3171 | 1681 |
| 111092 | 0.4737 | 188 |
Top tissues by expression
287 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| C1 segment of cervical spinal cord | UBERON:0006469 | 97.99 | gold quality |
| spinal cord | UBERON:0002240 | 97.67 | gold quality |
| apex of heart | UBERON:0002098 | 97.05 | gold quality |
| lower esophagus muscularis layer | UBERON:0035833 | 96.42 | gold quality |
| lower esophagus | UBERON:0013473 | 96.41 | gold quality |
| amygdala | UBERON:0001876 | 96.34 | gold quality |
| putamen | UBERON:0001874 | 96.23 | gold quality |
| inferior vagus X ganglion | UBERON:0005363 | 96.19 | gold quality |
| muscle layer of sigmoid colon | UBERON:0035805 | 96.06 | gold quality |
| gastrocnemius | UBERON:0001388 | 96.05 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 95.93 | gold quality |
| esophagogastric junction muscularis propria | UBERON:0035841 | 95.85 | gold quality |
| muscle of leg | UBERON:0001383 | 95.77 | gold quality |
| subthalamic nucleus | UBERON:0001906 | 95.74 | gold quality |
| mucosa of stomach | UBERON:0001199 | 95.64 | gold quality |
| ventral tegmental area | UBERON:0002691 | 95.64 | gold quality |
| substantia nigra | UBERON:0002038 | 95.58 | gold quality |
| right lung | UBERON:0002167 | 95.52 | gold quality |
| sural nerve | UBERON:0015488 | 95.50 | gold quality |
| midbrain | UBERON:0001891 | 95.46 | gold quality |
| nucleus accumbens | UBERON:0001882 | 95.45 | gold quality |
| skin of leg | UBERON:0001511 | 95.43 | gold quality |
| fundus of stomach | UBERON:0001160 | 95.42 | gold quality |
| saphenous vein | UBERON:0007318 | 95.38 | gold quality |
| nipple | UBERON:0002030 | 95.24 | gold quality |
| heart left ventricle | UBERON:0002084 | 95.18 | gold quality |
| pituitary gland | UBERON:0000007 | 95.17 | gold quality |
| adenohypophysis | UBERON:0002196 | 95.15 | gold quality |
| right atrium auricular region | UBERON:0006631 | 95.07 | gold quality |
| hypothalamus | UBERON:0001898 | 95.03 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | no | 0.00 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
30 targeting FBXW4, 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-4673 | 100.00 | 66.64 | 1490 |
| HSA-MIR-3646 | 100.00 | 73.56 | 5283 |
| HSA-MIR-3662 | 99.99 | 73.82 | 5684 |
| HSA-MIR-4645-5P | 99.98 | 65.81 | 1284 |
| HSA-MIR-520D-5P | 99.98 | 73.34 | 4883 |
| HSA-MIR-524-5P | 99.98 | 73.43 | 4882 |
| HSA-MIR-6783-3P | 99.89 | 67.92 | 2059 |
| HSA-MIR-345-3P | 99.89 | 70.23 | 1421 |
| HSA-MIR-1343-3P | 99.89 | 66.78 | 1815 |
| HSA-MIR-4492 | 99.87 | 68.25 | 3611 |
| HSA-MIR-3151-5P | 99.86 | 63.83 | 1069 |
| HSA-MIR-4319 | 99.76 | 69.83 | 2586 |
| HSA-MIR-2681-5P | 99.75 | 67.64 | 1655 |
| HSA-MIR-29B-2-5P | 99.67 | 68.98 | 1726 |
| HSA-MIR-670-5P | 99.67 | 69.94 | 1565 |
| HSA-MIR-486-3P | 99.51 | 66.82 | 1901 |
| HSA-MIR-6080 | 99.43 | 69.43 | 373 |
| HSA-MIR-330-3P | 99.41 | 69.95 | 2521 |
| HSA-MIR-125A-5P | 99.36 | 70.59 | 1640 |
| HSA-MIR-125B-5P | 99.36 | 70.36 | 1662 |
| HSA-MIR-6840-3P | 98.68 | 65.95 | 1923 |
| HSA-MIR-6764-3P | 98.44 | 67.64 | 1153 |
| HSA-MIR-6824-3P | 98.44 | 67.62 | 1154 |
| HSA-MIR-4646-5P | 97.70 | 66.84 | 1692 |
| HSA-MIR-3936 | 97.64 | 64.47 | 732 |
| HSA-MIR-8057 | 97.64 | 66.54 | 897 |
| HSA-MIR-665 | 97.60 | 65.64 | 1781 |
| HSA-MIR-4732-3P | 97.15 | 65.45 | 881 |
| HSA-MIR-6822-3P | 96.60 | 66.06 | 680 |
| HSA-MIR-7109-3P | 94.23 | 67.19 | 743 |
Functional genomics
ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 5)
- a complex rearrangement associated with a approximately 0.5 Mb tandem duplication ion containing a disrupted extra copy of the DACTYLIN gene and the entire LBX1 and beta-TRCP genes. (PMID:12913067)
- results indicate that genomic rearrangement of SHFM3 is rare among non-syndromic SHFM patients and emphasize the importance of screening for genomic rearrangements even in sporadic cases of SHFM (PMID:16235095)
- Genomic rearrangements involving the SHFM3 locus at chromosome 10q24 is associated with syndromic and non-syndromic split-hand/foot malformation (PMID:16761290)
- biochemical characterization of the novel F-box and WD40 containing protein, FBXW4 (PMID:23658844)
- CircFBXW4 Suppresses Colorectal Cancer Progression by Regulating the MiR-338-5p/SLC5A7 Axis. (PMID:38461489)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | fbxw4 | ENSDARG00000033551 |
| mus_musculus | Fbxw4 | ENSMUSG00000040913 |
| rattus_norvegicus | Fbxw4 | ENSRNOG00000046211 |
| drosophila_melanogaster | CG33969 | FBGN0053969 |
Protein
Protein identifiers
F-box/WD repeat-containing protein 4 — P57775 (reviewed: P57775)
Alternative names: Dactylin, F-box and WD-40 domain-containing protein 4
All UniProt accessions (3): P57775, A0A384P5X9, A0A5F9UQ55
UniProt curated annotations — full annotation on UniProt →
Function. Probably recognizes and binds to some phosphorylated proteins and promotes their ubiquitination and degradation. Likely to be involved in key signaling pathways crucial for normal limb development. May participate in Wnt signaling.
Subunit / interactions. Part of a SCF (SKP1-cullin-F-box) protein ligase complex. Interacts with POUF51.
Tissue specificity. Expressed in brain, kidney, lung and liver.
Disease relevance. Split-hand/foot malformation 3 (SHFM3) [MIM:246560] A limb malformation involving the central rays of the autopod and presenting with syndactyly, median clefts of the hands and feet, and aplasia and/or hypoplasia of the phalanges, metacarpals, and metatarsals. Some patients have been found to have intellectual disability, ectodermal and craniofacial findings, and orofacial clefting. The disease is caused by variants affecting the gene represented in this entry.
RefSeq proteins (2): NP_001310470, NP_071322* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR001680 | WD40_rpt | Repeat |
| IPR001810 | F-box_dom | Domain |
| IPR015943 | WD40/YVTN_repeat-like_dom_sf | Homologous_superfamily |
| IPR036047 | F-box-like_dom_sf | Homologous_superfamily |
| IPR036322 | WD40_repeat_dom_sf | Homologous_superfamily |
| IPR052301 | SCF_F-box/WD-repeat | Family |
Pfam: PF00400, PF12937
UniProt features (9 total): repeat 6, chain 1, domain 1, sequence conflict 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P57775-F1 | 90.91 | 0.79 |
Function
Pathways and Gene Ontology
Reactome pathways
3 pathways
| ID | Pathway |
|---|---|
| R-HSA-390471 | Association of TriC/CCT with target proteins during biosynthesis |
| R-HSA-8951664 | Neddylation |
| R-HSA-983168 | Antigen processing: Ubiquitination & Proteasome degradation |
MSigDB gene sets: 218 (showing top):
PAX4_01, REACTOME_ADAPTIVE_IMMUNE_SYSTEM, MODULE_255, RORA1_01, REACTOME_CLASS_I_MHC_MEDIATED_ANTIGEN_PROCESSING_PRESENTATION, REACTOME_ANTIGEN_PROCESSING_UBIQUITINATION_PROTEASOME_DEGRADATION, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_UP, GOBP_MACROMOLECULE_CATABOLIC_PROCESS, MODULE_317, TGACCTY_ERR1_Q2, CEBPB_01, TCF4_Q5, KOYAMA_SEMA3B_TARGETS_UP, BLALOCK_ALZHEIMERS_DISEASE_UP
GO Biological Process (8): ubiquitin-dependent protein catabolic process (GO:0006511), Wnt signaling pathway (GO:0016055), embryonic limb morphogenesis (GO:0030326), SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146), positive regulation of mesenchymal cell proliferation (GO:0002053), embryonic digit morphogenesis (GO:0042733), cartilage development (GO:0051216), limb development (GO:0060173)
GO Molecular Function (1): protein binding (GO:0005515)
GO Cellular Component (3): ubiquitin ligase complex (GO:0000151), cytosol (GO:0005829), SCF ubiquitin ligase complex (GO:0019005)
Reactome top-level categories
Rollup of top-3 pathways:
| Category | Pathways |
|---|---|
| Chaperonin-mediated protein folding | 1 |
| Post-translational protein modification | 1 |
| Class I MHC mediated antigen processing & presentation | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| protein ubiquitination | 1 |
| modification-dependent protein catabolic process | 1 |
| cell surface receptor signaling pathway | 1 |
| limb morphogenesis | 1 |
| embryonic appendage morphogenesis | 1 |
| proteasome-mediated ubiquitin-dependent protein catabolic process | 1 |
| positive regulation of cell population proliferation | 1 |
| mesenchymal cell proliferation | 1 |
| regulation of mesenchymal cell proliferation | 1 |
| embryonic limb morphogenesis | 1 |
| embryonic morphogenesis | 1 |
| skeletal system development | 1 |
| animal organ development | 1 |
| connective tissue development | 1 |
| appendage development | 1 |
| binding | 1 |
| intracellular protein-containing complex | 1 |
| transferase complex | 1 |
| cytoplasm | 1 |
| cellular anatomical structure | 1 |
| cullin-RING ubiquitin ligase complex | 1 |
Protein interactions and networks
STRING
658 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| FBXW4 | LBX1 | P52954 | 894 |
| FBXW4 | POLL | Q9UGP5 | 874 |
| FBXW4 | BTRC | Q9Y297 | 794 |
| FBXW4 | SEM1 | Q6ZVN7 | 738 |
| FBXW4 | SUFU | Q9UMX1 | 684 |
| FBXW4 | FBXW2 | Q9UKT8 | 612 |
| FBXW4 | FBXW5 | Q969U6 | 598 |
| FBXW4 | TLX1 | P31314 | 577 |
| FBXW4 | FBXW8 | Q8N3Y1 | 569 |
| FBXW4 | FGF8 | P55075 | 558 |
| FBXW4 | DLX6 | P56179 | 552 |
| FBXW4 | DLX5 | P56178 | 541 |
| FBXW4 | FBXW9 | Q5XUX1 | 532 |
| FBXW4 | SKP1 | P34991 | 520 |
| FBXW4 | FBXW12 | Q6X9E4 | 488 |
IntAct
24 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| COPS6 | RHOBTB1 | psi-mi:“MI:0914”(association) | 0.730 |
| SKP1 | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.670 |
| PRKN | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.560 |
| FBXW4 | TXNDC9 | psi-mi:“MI:0914”(association) | 0.530 |
| PFDN2 | CDC40 | psi-mi:“MI:0914”(association) | 0.530 |
| FBXW4 | TCP1 | psi-mi:“MI:0914”(association) | 0.530 |
| SKP1 | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.400 |
| CUL1 | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.400 |
| FBXW4 | CDC37 | psi-mi:“MI:0915”(physical association) | 0.370 |
| ECSIT | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.370 |
| MAST1 | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.370 |
| FBXW4 | RNF32 | psi-mi:“MI:0915”(physical association) | 0.370 |
| SLX4IP | RNASEH1 | psi-mi:“MI:0914”(association) | 0.350 |
| CUL4A | DDX39A | psi-mi:“MI:0914”(association) | 0.350 |
| ANKRD39 | UBA6 | psi-mi:“MI:0914”(association) | 0.350 |
| SKP1 | BHLHE40 | psi-mi:“MI:0914”(association) | 0.350 |
| SKP1 | NDC80 | psi-mi:“MI:0914”(association) | 0.350 |
| LCOR | FBXW4 | psi-mi:“MI:0915”(physical association) | 0.000 |
BioGRID (107): CUL1 (Affinity Capture-Western), TCP1 (Affinity Capture-MS), CCT3 (Affinity Capture-MS), CCT7 (Affinity Capture-MS), CCT4 (Affinity Capture-MS), CCT6B (Affinity Capture-MS), CCT6A (Affinity Capture-MS), CCT2 (Affinity Capture-MS), PDCL3 (Affinity Capture-MS), CCT8 (Affinity Capture-MS), CCT5 (Affinity Capture-MS), PFDN5 (Affinity Capture-MS), PDRG1 (Affinity Capture-MS), TXNDC9 (Affinity Capture-MS), PDCL (Affinity Capture-MS)
ESM2 similar proteins: A2AA28, A4FV42, A4FV98, A6NDG6, D3YWP0, D3ZVU9, O15315, O35719, O70277, O75382, O94759, P21964, P57775, P81799, Q2TBS1, Q3UGX3, Q4R3I0, Q5E9V4, Q5H879, Q5RJL2, Q5SUV1, Q6DC64, Q7Z624, Q86WI3, Q86XA0, Q8BNV1, Q8C436, Q8CIW5, Q8IZ69, Q8N8L6, Q8N9F0, Q8VCX6, Q8WXB1, Q96AZ1, Q96FB5, Q96RR1, Q9BQD7, Q9BRQ3, Q9BUU2, Q9CQL0
Diamond homologs: A1C7E4, A1CBP8, A1DDL6, A1DHW6, A2QCU8, A2R3Z3, A4RJV3, A6ZQL5, A6ZZZ8, A7ETB3, A7THX0, A7TNS8, A8PTE4, A8Q2R5, B0XTS1, B6GZA1, B6Q4Z5, B8M7Q5, B8NGT5, C5FP68, D4AM37, D4D8P3, O42937, P0CS44, P0CS45, P25387, P36130, P47025, P57775, Q00659, Q01277, Q0CJD8, Q0CY32, Q0U2T3, Q1DIW7, Q2H139, Q2KJJ5, Q2U5Z8, Q2UFN8, Q4P8R5
SIGNOR signaling
0 interactions.
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 22 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| protein ubiquitination | 5 | 10.9× | 5e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
147 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 1 |
| Likely pathogenic | 0 |
| Uncertain significance | 97 |
| Likely benign | 22 |
| Benign | 8 |
Top pathogenic / likely-pathogenic (1)
| Variant ID | HGVS | Classification |
|---|---|---|
| 625658 | GRCh37/hg19 10q24.31-24.32(chr10:102822575-103558868) | Pathogenic |
SpliceAI
1767 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 10:101611621:CACTT:C | donor_loss | 1.0000 |
| 10:101611622:ACTTA:A | donor_loss | 1.0000 |
| 10:101611623:CTTA:C | donor_loss | 1.0000 |
| 10:101611624:TTACG:T | donor_loss | 1.0000 |
| 10:101611625:TAC:T | donor_loss | 1.0000 |
| 10:101611626:A:AC | donor_gain | 1.0000 |
| 10:101611626:A:C | donor_loss | 1.0000 |
| 10:101611626:ACGTG:A | donor_gain | 1.0000 |
| 10:101611627:C:CG | donor_gain | 1.0000 |
| 10:101611627:CG:C | donor_gain | 1.0000 |
| 10:101611627:CGT:C | donor_gain | 1.0000 |
| 10:101611627:CGTG:C | donor_gain | 1.0000 |
| 10:101611627:CGTGC:C | donor_gain | 1.0000 |
| 10:101611765:ATTTC:A | acceptor_gain | 1.0000 |
| 10:101611766:TTTC:T | acceptor_gain | 1.0000 |
| 10:101611767:TTC:T | acceptor_gain | 1.0000 |
| 10:101611768:TC:T | acceptor_gain | 1.0000 |
| 10:101611769:CC:C | acceptor_gain | 1.0000 |
| 10:101611770:C:CA | acceptor_loss | 1.0000 |
| 10:101611770:C:CC | acceptor_gain | 1.0000 |
| 10:101611775:C:CT | acceptor_gain | 1.0000 |
| 10:101611775:C:T | acceptor_gain | 1.0000 |
| 10:101611776:A:T | acceptor_gain | 1.0000 |
| 10:101612335:A:AC | donor_gain | 1.0000 |
| 10:101612336:C:CC | donor_gain | 1.0000 |
| 10:101612475:CCA:C | acceptor_gain | 1.0000 |
| 10:101612476:CA:C | acceptor_gain | 1.0000 |
| 10:101612476:CAC:C | acceptor_gain | 1.0000 |
| 10:101612478:C:CC | acceptor_gain | 1.0000 |
| 10:101670993:C:A | donor_gain | 1.0000 |
AlphaMissense
3640 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 10:101624797:C:A | G262W | 1.000 |
| 10:101672939:A:C | S217R | 1.000 |
| 10:101672939:A:T | S217R | 1.000 |
| 10:101672941:T:G | S217R | 1.000 |
| 10:101612364:C:G | R317P | 0.999 |
| 10:101624796:C:T | G262E | 0.999 |
| 10:101611655:C:A | W364C | 0.998 |
| 10:101611655:C:G | W364C | 0.998 |
| 10:101611657:A:G | W364R | 0.998 |
| 10:101611657:A:T | W364R | 0.998 |
| 10:101611686:C:T | G354D | 0.998 |
| 10:101611753:A:G | W332R | 0.998 |
| 10:101611753:A:T | W332R | 0.998 |
| 10:101612359:A:G | W319R | 0.998 |
| 10:101612359:A:T | W319R | 0.998 |
| 10:101624758:A:G | W275R | 0.998 |
| 10:101624758:A:T | W275R | 0.998 |
| 10:101624797:C:G | G262R | 0.998 |
| 10:101624797:C:T | G262R | 0.998 |
| 10:101672935:A:G | S219P | 0.998 |
| 10:101672937:C:T | G218D | 0.998 |
| 10:101672943:A:T | V216E | 0.998 |
| 10:101673496:A:C | S178R | 0.998 |
| 10:101673496:A:T | S178R | 0.998 |
| 10:101673498:T:G | S178R | 0.998 |
| 10:101611687:C:G | G354R | 0.997 |
| 10:101612376:T:A | D313V | 0.997 |
| 10:101667916:A:T | V247D | 0.997 |
| 10:101667923:C:G | D245H | 0.997 |
| 10:101611337:G:T | A398D | 0.996 |
dbSNP variants (sampled 300 via entrez): RS1000066042 (10:101628379 C>A), RS1000077450 (10:101628734 C>T), RS1000099322 (10:101649661 A>G), RS1000125423 (10:101677604 A>C), RS1000147375 (10:101655212 G>T), RS1000168739 (10:101662735 C>T), RS1000221409 (10:101662548 T>A), RS1000274341 (10:101613905 G>A), RS1000368716 (10:101614333 C>G), RS1000387131 (10:101662839 C>G), RS1000508028 (10:101691178 T>G), RS1000519903 (10:101677196 A>G,T), RS1000520719 (10:101641054 C>T), RS1000551576 (10:101661238 T>A), RS1000565203 (10:101682703 G>T)
Disease associations
OMIM: gene MIM:608071 | disease phenotypes: MIM:246560
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| split hand-foot malformation 3 | Limited | Autosomal dominant |
Mondo (1): split hand-foot malformation 3 (MONDO:0009525)
Orphanet (1): Distal limb deficiencies-micrognathia syndrome (Orphanet:1307)
HPO phenotypes
8 total (8 of 8 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000407 | Sensorineural hearing impairment |
| HP:0000526 | Aniridia |
| HP:0001171 | Split hand |
| HP:0001839 | Split foot |
| HP:0004050 | Absent hand |
| HP:0004058 | Hand monodactyly |
| HP:0006101 | Finger syndactyly |
| HP:0012165 | Oligodactyly |
GWAS associations
1 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST006979_603 | Heel bone mineral density | 5.000000e-10 |
EFO canonical traits (1, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0009270 | heel bone mineral density |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| C565437 | Limb Deficiencies, Distal, with Micrognathia (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
24 total (human), top 24 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects cotreatment, increases expression, decreases expression, affects expression | 7 |
| Cisplatin | decreases expression, increases expression | 2 |
| Phenylmercuric Acetate | affects cotreatment, decreases expression | 2 |
| 1,6-hexamethylene diisocyanate | increases methylation | 1 |
| sodium arsenite | increases expression | 1 |
| butyraldehyde | decreases expression | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| perfluorooctane sulfonic acid | increases expression | 1 |
| 2-palmitoylglycerol | increases expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | affects cotreatment, decreases expression | 1 |
| belinostat | decreases expression | 1 |
| abrine | increases expression | 1 |
| dorsomorphin | affects cotreatment, decreases expression | 1 |
| Vorinostat | decreases expression | 1 |
| Acetaminophen | increases expression | 1 |
| Air Pollutants | increases abundance, increases expression | 1 |
| Carbamazepine | affects expression | 1 |
| Dichlorodiphenyl Dichloroethylene | decreases expression | 1 |
| Hydralazine | affects cotreatment, increases expression | 1 |
| Silicon Dioxide | decreases expression | 1 |
| Thiram | increases expression | 1 |
| Aflatoxin B1 | decreases methylation | 1 |
| Okadaic Acid | decreases expression | 1 |
| Particulate Matter | increases abundance, increases expression | 1 |
Clinical trials (associated diseases)
0 trials via MONDO — disease-level, not drug-specific.
Related Atlas pages
- Associated diseases: split hand-foot malformation 3
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): split hand-foot malformation 3