PLEKHF2
gene geneOn this page
Also known as ZFYVE18PHAFIN2FLJ13187
Summary
PLEKHF2 (pleckstrin homology and FYVE domain containing 2, HGNC:20757) is a protein-coding gene on chromosome 8q22.1, encoding Pleckstrin homology domain-containing family F member 2 (Q9H8W4). May play a role in early endosome fusion upstream of RAB5, hence regulating receptor trafficking and fluid-phase transport.
Predicted to enable phosphatidylinositol binding activity. Predicted to be involved in endosome organization and endosome to lysosome transport. Located in transport vesicle.
Source: NCBI Gene 79666 — RefSeq curated summary.
At a glance
- GWAS associations: 2
- Clinical variants (ClinVar): 14 total
- MANE Select transcript:
NM_024613
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:20757 |
| Approved symbol | PLEKHF2 |
| Name | pleckstrin homology and FYVE domain containing 2 |
| Location | 8q22.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | ZFYVE18, PHAFIN2, FLJ13187 |
| Ensembl gene | ENSG00000175895 |
| Ensembl biotype | protein_coding |
| OMIM | 615208 |
| Entrez | 79666 |
Gene structure
Transcript identifiers
Ensembl transcripts: 9 — 8 protein_coding, 1 protein_coding_CDS_not_defined
ENST00000315367, ENST00000519516, ENST00000700745, ENST00000700746, ENST00000700747, ENST00000700748, ENST00000700749, ENST00000908157, ENST00000945912
RefSeq mRNA: 1 — MANE Select: NM_024613
NM_024613
CCDS: CCDS6267
Canonical transcript exons
ENST00000315367 — 2 exons
| Exon | Start | End |
|---|---|---|
| ENSE00003980720 | 95154031 | 95156685 |
| ENSE00003980727 | 95133785 | 95134030 |
Expression profiles
Bgee: expression breadth ubiquitous, 268 present calls, max score 97.44.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 23.6285 / max 461.4001, expressed in 1800 samples.
FANTOM5 promoters (6 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 89819 | 9.4530 | 1710 |
| 89822 | 6.6149 | 1165 |
| 89821 | 3.6110 | 1149 |
| 89820 | 1.8990 | 807 |
| 89823 | 1.3582 | 605 |
| 89818 | 0.6924 | 328 |
Top tissues by expression
284 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| secondary oocyte | CL:0000655 | 97.44 | gold quality |
| oocyte | CL:0000023 | 95.14 | gold quality |
| upper leg skin | UBERON:0004262 | 94.28 | gold quality |
| palpebral conjunctiva | UBERON:0001812 | 94.21 | gold quality |
| bronchial epithelial cell | CL:0002328 | 94.01 | gold quality |
| skin of hip | UBERON:0001554 | 93.06 | gold quality |
| monocyte | CL:0000576 | 92.89 | gold quality |
| mononuclear cell | CL:0000842 | 92.87 | gold quality |
| leukocyte | CL:0000738 | 92.73 | gold quality |
| sperm | CL:0000019 | 92.51 | gold quality |
| bone marrow | UBERON:0002371 | 92.31 | gold quality |
| corpus epididymis | UBERON:0004359 | 91.81 | gold quality |
| epithelium of bronchus | UBERON:0002031 | 91.34 | gold quality |
| olfactory segment of nasal mucosa | UBERON:0005386 | 91.22 | gold quality |
| epithelium of nasopharynx | UBERON:0001951 | 91.16 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 91.14 | gold quality |
| caput epididymis | UBERON:0004358 | 91.09 | gold quality |
| colonic mucosa | UBERON:0000317 | 90.86 | gold quality |
| bronchus | UBERON:0002185 | 90.58 | gold quality |
| lymph node | UBERON:0000029 | 90.29 | gold quality |
| islet of Langerhans | UBERON:0000006 | 90.05 | gold quality |
| mucosa of paranasal sinus | UBERON:0005030 | 90.03 | gold quality |
| nasal cavity mucosa | UBERON:0001826 | 89.60 | gold quality |
| trabecular bone tissue | UBERON:0002483 | 89.54 | gold quality |
| vermiform appendix | UBERON:0001154 | 89.48 | gold quality |
| oral cavity | UBERON:0000167 | 89.43 | gold quality |
| amniotic fluid | UBERON:0000173 | 89.25 | gold quality |
| male germ cell | CL:0000015 | 88.84 | gold quality |
| bone marrow cell | CL:0002092 | 88.71 | gold quality |
| superficial temporal artery | UBERON:0001614 | 88.05 | 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
Upstream regulators (CollecTRI, top): E2F1
miRNA regulators (miRDB)
181 targeting PLEKHF2, 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-6740-5P | 100.00 | 65.64 | 932 |
| HSA-MIR-1277-5P | 100.00 | 73.95 | 5056 |
| HSA-MIR-3613-3P | 100.00 | 76.36 | 7965 |
| HSA-MIR-3924 | 100.00 | 72.09 | 2394 |
| HSA-MIR-3163 | 100.00 | 77.23 | 8605 |
| HSA-MIR-29A-3P | 100.00 | 73.11 | 1835 |
| HSA-MIR-29B-3P | 100.00 | 73.18 | 1833 |
| HSA-MIR-29C-3P | 100.00 | 73.15 | 1833 |
| HSA-MIR-5011-5P | 100.00 | 83.46 | 5820 |
| HSA-MIR-4692 | 100.00 | 67.32 | 2066 |
| HSA-MIR-4481 | 100.00 | 66.42 | 1669 |
| HSA-MIR-574-5P | 100.00 | 66.01 | 989 |
| HSA-MIR-371B-5P | 99.99 | 75.34 | 4759 |
| HSA-MIR-548AW | 99.99 | 72.57 | 3559 |
| HSA-MIR-548C-3P | 99.99 | 74.01 | 7587 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-513B-5P | 99.99 | 69.96 | 2150 |
| HSA-MIR-520D-5P | 99.98 | 73.34 | 4883 |
| HSA-MIR-524-5P | 99.98 | 73.43 | 4882 |
| HSA-MIR-103A-3P | 99.98 | 69.14 | 1595 |
| HSA-MIR-107 | 99.98 | 69.14 | 1595 |
| HSA-MIR-373-5P | 99.98 | 75.36 | 4753 |
| HSA-MIR-616-5P | 99.98 | 75.58 | 4775 |
| HSA-MIR-19A-3P | 99.98 | 75.33 | 2762 |
| HSA-MIR-19B-3P | 99.98 | 75.44 | 2754 |
| HSA-MIR-607 | 99.97 | 73.62 | 5593 |
| HSA-MIR-3688-3P | 99.97 | 72.02 | 2834 |
| HSA-MIR-3065-5P | 99.97 | 71.56 | 3281 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
| HSA-MIR-1468-3P | 99.96 | 72.74 | 3797 |
Literature-anchored findings (GeneRIF, showing 8)
- Results demonstrate that EAPF/Phafin-2 facilitates TNF-alpha-induced cellular apoptosis through an ER-mitochondrial apoptotic pathway. (PMID:18288467)
- These results provide a vivid example that an endosome modulator, such as Phafin2, may control the cells’ responses to the extracellular cues. (PMID:19995552)
- Phafin2 controls EGFR trafficking through early endosomes by facilitating endosome fusion in concert with EEA1. (PMID:22816767)
- These findings establish that lysosomal accumulation of Akt and Phafin2 is a critical step in the induction of autophagy via an interaction with phosphatidylinositol 3 phosphate. (PMID:24416124)
- PtdIns(3)P binding to Phafin2 occurs with high affinity, triggering minor conformational changes in the protein. Taken together, these studies represent a platform for establishing the structural basis of Phafin2 molecular interactions and the role of the two potentially redundant PtdIns(3)P-binding domains of the protein in endomembrane compartments. (PMID:28152563)
- The C-terminal acidic motif of Phafin2 inhibits PH domain binding to phosphatidylinositol 3-phosphate. (PMID:32126233)
- Bioinformatics analysis of the genes involved in the extension of prostate cancer to adjacent lymph nodes by supervised and unsupervised machine learning methods: The role of SPAG1 and PLEKHF2. (PMID:32619574)
- The phosphoinositide coincidence detector Phafin2 promotes macropinocytosis by coordinating actin organisation at forming macropinosomes. (PMID:34772942)
Cross-species orthologs
5 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | plekhf2 | ENSDARG00000021141 |
| mus_musculus | Plekhf2 | ENSMUSG00000049969 |
| rattus_norvegicus | Plekhf2 | ENSRNOG00000026662 |
| drosophila_melanogaster | rush | FBGN0025381 |
| caenorhabditis_elegans | WBGENE00014019 |
Paralogs (13): RUFY3 (ENSG00000018189), ZFYVE16 (ENSG00000039319), SNX29 (ENSG00000048471), ZFYVE26 (ENSG00000072121), RUNDC3B (ENSG00000105784), RUNDC3A (ENSG00000108309), PLEKHM2 (ENSG00000116786), ZFYVE28 (ENSG00000159733), ZFYVE1 (ENSG00000165861), ZFYVE19 (ENSG00000166140), PLEKHF1 (ENSG00000166289), RUFY1 (ENSG00000176783), RUFY2 (ENSG00000204130)
Protein
Protein identifiers
Pleckstrin homology domain-containing family F member 2 — Q9H8W4 (reviewed: Q9H8W4)
Alternative names: Endoplasmic reticulum-associated apoptosis-involved protein containing PH and FYVE domains, PH and FYVE domain-containing protein 2, Phafin-2, Zinc finger FYVE domain-containing protein 18
All UniProt accessions (1): Q9H8W4
UniProt curated annotations — full annotation on UniProt →
Function. May play a role in early endosome fusion upstream of RAB5, hence regulating receptor trafficking and fluid-phase transport. Enhances cellular sensitivity to TNF-induced apoptosis.
Subunit / interactions. May interact with EEA1.
Subcellular location. Early endosome membrane. Endoplasmic reticulum.
Tissue specificity. Expressed in placenta, ovary and small intestine, as well as in heart and pancreas. Also expressed in peripheral blood mononuclear cells and dendritic cells.
Domain organisation. The PH and FYVE domains may be important for TNF-induced localization to the endoplasmic reticulum and for enhanced cellular sensitivity to TNF-induced apoptosis. The FYVE domain is important for binding to the endosomal membrane.
Induction. Up-regulated by TNF, bacterial lipopolysaccharides (LPS) and phorbol myristate acetate (PMA) (at protein level).
RefSeq proteins (1): NP_078889* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000306 | Znf_FYVE | Domain |
| IPR001849 | PH_domain | Domain |
| IPR011011 | Znf_FYVE_PHD | Homologous_superfamily |
| IPR011993 | PH-like_dom_sf | Homologous_superfamily |
| IPR013083 | Znf_RING/FYVE/PHD | Homologous_superfamily |
| IPR017455 | Znf_FYVE-rel | Domain |
| IPR037871 | PH_Phafin | Domain |
| IPR047966 | PLEKHF2_FYVE | Domain |
| IPR051765 | PH_domain-containing_F | Family |
Pfam: PF00169, PF01363
UniProt features (18 total): binding site 8, modified residue 4, compositionally biased region 2, chain 1, domain 1, zinc finger region 1, region of interest 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9H8W4-F1 | 87.36 | 0.78 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Ligand- & substrate-binding residues (8): 183; 186; 204; 207; 158; 161; 175; 178
Post-translational modifications (4): 16, 44, 239, 248
Function
Pathways and Gene Ontology
Reactome pathways
0 pathways
MSigDB gene sets: 259 (showing top):
GOBP_LYSOSOMAL_TRANSPORT, GOBP_ENDOSOME_ORGANIZATION, MODULE_255, GOBP_VESICLE_ORGANIZATION, GRAESSMANN_APOPTOSIS_BY_SERUM_DEPRIVATION_UP, GOBP_ENDOSOME_TO_LYSOSOME_TRANSPORT, IVANOVA_HEMATOPOIESIS_LATE_PROGENITOR, MODULE_317, GOBP_VACUOLAR_TRANSPORT, GOBP_VESICLE_MEDIATED_TRANSPORT, PATIL_LIVER_CANCER, MODULE_331, ONKEN_UVEAL_MELANOMA_UP, FOSTER_TOLERANT_MACROPHAGE_UP, SMID_BREAST_CANCER_LUMINAL_B_UP
GO Biological Process (3): endosome organization (GO:0007032), endosome to lysosome transport (GO:0008333), protein transport (GO:0015031)
GO Molecular Function (4): zinc ion binding (GO:0008270), phosphatidylinositol binding (GO:0035091), protein binding (GO:0005515), metal ion binding (GO:0046872)
GO Cellular Component (8): early endosome (GO:0005769), endoplasmic reticulum (GO:0005783), transport vesicle (GO:0030133), early endosome membrane (GO:0031901), endosome (GO:0005768), endomembrane system (GO:0012505), membrane (GO:0016020), cytoplasmic vesicle (GO:0031410)
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| endomembrane system | 3 |
| cytoplasm | 2 |
| cytoplasmic vesicle | 2 |
| cellular anatomical structure | 2 |
| endomembrane system organization | 1 |
| vesicle organization | 1 |
| lysosomal transport | 1 |
| intercellular transport | 1 |
| vesicle-mediated transport | 1 |
| transport | 1 |
| intracellular protein localization | 1 |
| establishment of protein localization | 1 |
| transition metal ion binding | 1 |
| anion binding | 1 |
| binding | 1 |
| cation binding | 1 |
| endosome | 1 |
| intracellular membrane-bounded organelle | 1 |
| early endosome | 1 |
| endosome membrane | 1 |
| vacuole | 1 |
| plasma membrane | 1 |
| intracellular vesicle | 1 |
Protein interactions and networks
STRING
584 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| PLEKHF2 | AKT1 | P31749 | 571 |
| PLEKHF2 | PIKFYVE | Q9Y2I7 | 454 |
| PLEKHF2 | SNX29 | Q8TEQ0 | 410 |
| PLEKHF2 | PLEKHG1 | Q9ULL1 | 410 |
| PLEKHF2 | NOP53 | Q9NZM5 | 379 |
| PLEKHF2 | FAM43A | Q8N2R8 | 379 |
| PLEKHF2 | VRK2 | Q86Y07 | 375 |
| PLEKHF2 | INO80E | Q8NBZ0 | 350 |
| PLEKHF2 | PLEK2 | Q9NYT0 | 349 |
| PLEKHF2 | PLEK | P08567 | 348 |
| PLEKHF2 | PHIP | Q8WWQ0 | 335 |
| PLEKHF2 | MED4 | Q9NPJ6 | 333 |
| PLEKHF2 | PHF5A | Q7RTV0 | 332 |
| PLEKHF2 | CYRIA | Q9H0Q0 | 324 |
| PLEKHF2 | ZNF592 | Q92610 | 323 |
IntAct
516 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| PLEKHF2 | FRMD8 | psi-mi:“MI:0915”(physical association) | 0.720 |
| FBXO28 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.720 |
| HSPB7 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.720 |
| FRMD8 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.720 |
| PLEKHF2 | FBXO28 | psi-mi:“MI:0915”(physical association) | 0.720 |
| MEAF6 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.700 |
| PLEKHF2 | MEAF6 | psi-mi:“MI:0915”(physical association) | 0.700 |
| PLEKHF2 | LDOC1 | psi-mi:“MI:0915”(physical association) | 0.700 |
| PLEKHF2 | TNFAIP8 | psi-mi:“MI:0915”(physical association) | 0.670 |
| ACY3 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.670 |
| PLEKHF2 | ACY3 | psi-mi:“MI:0915”(physical association) | 0.670 |
| BLOC1S6 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.670 |
| RABAC1 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.620 |
| CHIC2 | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.620 |
| MBIP | PLEKHF2 | psi-mi:“MI:0915”(physical association) | 0.620 |
BioGRID (224): PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid), PLEKHF2 (Two-hybrid)
ESM2 similar proteins: A2ALK8, A7MB43, D3ZDI6, F1LYQ8, F1P065, F8VPU2, O08967, O43739, O94887, P12264, P26045, P29074, P52735, P59113, P63034, P63035, P97694, P97696, Q0IJ35, Q15438, Q28013, Q2KI41, Q32NH8, Q5R8M5, Q5RAB8, Q5RID7, Q5ZLY5, Q60992, Q6TEM9, Q76MY7, Q76MZ1, Q7ZUV1, Q80YW0, Q8BM54, Q8WY64, Q91VS8, Q91WB4, Q925E0, Q93646, Q96QG7
Diamond homologs: A0A0D1E015, A0JMD2, A1CEK1, A1DFP5, A2QWA2, A4QTV1, A8QCE4, A8XJZ8, B0G126, B0WAQ0, B3MT31, B3P851, B4G2G5, B4IC49, B4JHI7, B4K982, B4M140, B4NFJ7, B4PRU6, D2H5P6, D3ZVP7, D4A8G9, E1BLZ4, F1MM41, F7EP40, O13821, O14964, O59722, O76902, O95405, O96838, P0CS26, P0CS27, P34756, P40343, Q05B78, Q08CN9, Q0CJV3, Q0P4S0, Q0U4Z8
SIGNOR signaling
1 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| PLEKHF2 | “up-regulates activity” | EEA1 | binding |
Disease & clinical
Clinical variants and AI predictions
ClinVar
14 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 14 |
| Likely benign | 0 |
| Benign | 0 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
355 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 8:95154026:AAAAG:A | acceptor_gain | 1.0000 |
| 8:95154029:A:G | acceptor_gain | 1.0000 |
| 8:95134027:CGGG:C | donor_loss | 0.9900 |
| 8:95134028:GGG:G | donor_gain | 0.9900 |
| 8:95134029:GG:G | donor_gain | 0.9900 |
| 8:95134029:GGG:G | donor_gain | 0.9900 |
| 8:95134030:GG:G | donor_gain | 0.9900 |
| 8:95134031:G:GG | donor_gain | 0.9900 |
| 8:95134032:T:G | donor_loss | 0.9900 |
| 8:95154026:A:AG | acceptor_gain | 0.9900 |
| 8:95154027:A:G | acceptor_gain | 0.9900 |
| 8:95154027:AAAG:A | acceptor_gain | 0.9900 |
| 8:95154028:A:G | acceptor_gain | 0.9900 |
| 8:95154028:AAG:A | acceptor_gain | 0.9900 |
| 8:95154029:A:AC | acceptor_loss | 0.9900 |
| 8:95154030:G:GG | acceptor_gain | 0.9900 |
| 8:95154030:G:GT | acceptor_loss | 0.9900 |
| 8:95154030:GGCT:G | acceptor_gain | 0.9900 |
| 8:95154029:AG:A | acceptor_gain | 0.9800 |
| 8:95154030:GG:G | acceptor_gain | 0.9800 |
| 8:95154030:GGC:G | acceptor_gain | 0.9800 |
| 8:95154030:GGCTA:G | acceptor_gain | 0.9800 |
| 8:95133976:G:GT | donor_gain | 0.9600 |
| 8:95134026:TCGGG:T | donor_gain | 0.9600 |
| 8:95148010:A:G | donor_gain | 0.9500 |
| 8:95151961:A:G | donor_gain | 0.9400 |
| 8:95153204:G:GT | donor_gain | 0.9300 |
| 8:95134036:TG:T | donor_gain | 0.9100 |
| 8:95156472:AATAT:A | acceptor_gain | 0.9100 |
| 8:95134027:CGGGG:C | donor_gain | 0.9000 |
AlphaMissense
1659 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 8:95154108:T:C | F22L | 1.000 |
| 8:95154109:T:C | F22S | 1.000 |
| 8:95154110:T:A | F22L | 1.000 |
| 8:95154110:T:G | F22L | 1.000 |
| 8:95154130:T:C | L29S | 1.000 |
| 8:95154145:G:C | R34P | 1.000 |
| 8:95154151:T:C | L36P | 1.000 |
| 8:95154157:G:A | G38E | 1.000 |
| 8:95154162:G:A | G40R | 1.000 |
| 8:95154162:G:C | G40R | 1.000 |
| 8:95154163:G:A | G40E | 1.000 |
| 8:95154163:G:T | G40V | 1.000 |
| 8:95154169:T:C | L42S | 1.000 |
| 8:95154169:T:G | L42W | 1.000 |
| 8:95154174:A:C | K44Q | 1.000 |
| 8:95154174:A:G | K44E | 1.000 |
| 8:95154176:G:C | K44N | 1.000 |
| 8:95154176:G:T | K44N | 1.000 |
| 8:95154180:T:C | C46R | 1.000 |
| 8:95154181:G:A | C46Y | 1.000 |
| 8:95154184:G:C | R47T | 1.000 |
| 8:95154184:G:T | R47M | 1.000 |
| 8:95154185:G:C | R47S | 1.000 |
| 8:95154185:G:T | R47S | 1.000 |
| 8:95154202:G:C | R53T | 1.000 |
| 8:95154202:G:T | R53M | 1.000 |
| 8:95154203:G:C | R53S | 1.000 |
| 8:95154203:G:T | R53S | 1.000 |
| 8:95154208:T:C | F55S | 1.000 |
| 8:95154210:T:C | F56L | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000352980 (8:95138720 A>G), RS1000416897 (8:95152636 G>A), RS1000465072 (8:95147628 T>C,G), RS1000519722 (8:95133831 G>A), RS1000612339 (8:95148199 GT>G,GTT), RS1000718757 (8:95133711 G>T), RS1000769868 (8:95135096 C>A), RS1000837769 (8:95155184 T>C), RS1000844907 (8:95146974 A>G), RS1000908296 (8:95141859 C>T), RS1000956719 (8:95140303 A>C,G), RS1001028568 (8:95154967 C>T), RS1001184232 (8:95152184 G>A), RS1001215403 (8:95151775 A>C), RS1001324664 (8:95136364 A>G)
Disease associations
OMIM: gene MIM:615208 | disease phenotypes: MIM:118100, MIM:613094, MIM:613703, MIM:615360
GenCC curated gene-disease
Mondo (4): Klippel-Feil syndrome 1, autosomal dominant (MONDO:0007306), isolated microphthalmia 4 (MONDO:0013130), microphthalmia, isolated, with coloboma 6 (MONDO:0013376), Leber congenital amaurosis 17 (MONDO:0014145)
Orphanet (4): Isolated Klippel-Feil syndrome (Orphanet:2345), Isolated microphthalmia-anophthalmia-coloboma (Orphanet:2542), Leber congenital amaurosis (Orphanet:65), Colobomatous microphthalmia (Orphanet:98938)
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
2 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST000823_8 | Radiation response | 8.000000e-06 |
| GCST000823_9 | Radiation response | 4.000000e-07 |
MeSH disease descriptors (2)
| Descriptor | Name | Tree numbers |
|---|---|---|
| C536887 | Klippel Feil syndrome dominant type (supp.) | |
| C567757 | Microphthalmia, Isolated 4 (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
42 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects cotreatment, increases expression | 4 |
| Estradiol | decreases expression | 3 |
| Air Pollutants | increases abundance, decreases expression | 2 |
| 3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide | decreases expression | 1 |
| FR900359 | affects phosphorylation | 1 |
| dicrotophos | decreases expression | 1 |
| bisphenol A | decreases expression | 1 |
| trichostatin A | increases expression | 1 |
| tris(1,3-dichloro-2-propyl)phosphate | increases expression | 1 |
| sodium arsenite | increases expression | 1 |
| cobaltous chloride | increases expression | 1 |
| 4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide | increases expression, affects cotreatment | 1 |
| abrine | increases expression | 1 |
| dorsomorphin | affects cotreatment, increases expression | 1 |
| Resveratrol | affects cotreatment, decreases expression | 1 |
| Fulvestrant | increases expression | 1 |
| Vorinostat | increases expression | 1 |
| Leflunomide | increases expression | 1 |
| Acetaminophen | increases expression | 1 |
| Benzo(a)pyrene | decreases methylation | 1 |
| Cisplatin | increases expression | 1 |
| Coal | increases abundance, decreases expression | 1 |
| Coumestrol | affects cotreatment, decreases expression | 1 |
| Diethylstilbestrol | decreases expression | 1 |
| Gold | decreases expression | 1 |
| Hexestrol | decreases expression | 1 |
| Mestranol | decreases expression | 1 |
| Smoke | decreases expression, increases abundance | 1 |
| Thimerosal | increases expression, affects cotreatment | 1 |
| Thiram | increases expression | 1 |
Clinical trials (associated diseases)
2 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT03741790 | Not specified | ACTIVE_NOT_RECRUITING | Airway Management of Pediatric Patients With Klippel-Feil Syndrome |
| NCT06489392 | Not specified | COMPLETED | Mehri Turki Webbed Neck Classification |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): isolated microphthalmia 4, Klippel-Feil syndrome 1, autosomal dominant, Leber congenital amaurosis 17, microphthalmia, isolated, with coloboma 6