MRGBP
geneOn this page
Also known as FLJ10914MRG15BPEaf7
Summary
MRGBP (MRG domain binding protein, HGNC:15866) is a protein-coding gene on chromosome 20q13.33, encoding MRG/MORF4L-binding protein (Q9NV56). Component of the NuA4 histone acetyltransferase (HAT) complex which is involved in transcriptional activation of select genes principally by acetylation of nucleosomal histones H4 and H2A. It is a selective cancer dependency (DepMap: 87.8% of cell lines).
Involved in positive regulation of double-strand break repair via homologous recombination and regulation of cell cycle. Located in nucleoplasm. Part of NuA4 histone acetyltransferase complex and nucleosome.
Source: NCBI Gene 55257 — RefSeq curated summary.
At a glance
- Clinical variants (ClinVar): 20 total
- Cancer dependency (DepMap): dependent in 87.8% of screened cell lines
- MANE Select transcript:
NM_018270
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:15866 |
| Approved symbol | MRGBP |
| Name | MRG domain binding protein |
| Location | 20q13.33 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | FLJ10914, MRG15BP, Eaf7 |
| Ensembl gene | ENSG00000101189 |
| Ensembl biotype | protein_coding |
| OMIM | 611157 |
| Entrez | 55257 |
Gene structure
Transcript identifiers
Ensembl transcripts: 3 — 3 protein_coding
ENST00000370487, ENST00000885295, ENST00000950648
RefSeq mRNA: 1 — MANE Select: NM_018270
NM_018270
CCDS: CCDS13503
Canonical transcript exons
ENST00000370487 — 5 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000663292 | 62797110 | 62797231 |
| ENSE00000663293 | 62798587 | 62798668 |
| ENSE00000663294 | 62798975 | 62799049 |
| ENSE00001452852 | 62799456 | 62801729 |
| ENSE00001452855 | 62796473 | 62796671 |
Expression profiles
Bgee: expression breadth ubiquitous, 249 present calls, max score 93.58.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 17.5206 / max 139.3853, expressed in 1804 samples.
FANTOM5 promoters (1 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 185757 | 17.5206 | 1804 |
Top tissues by expression
272 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| sperm | CL:0000019 | 93.58 | gold quality |
| left testis | UBERON:0004533 | 93.51 | gold quality |
| right testis | UBERON:0004534 | 93.25 | gold quality |
| testis | UBERON:0000473 | 92.07 | gold quality |
| male germ cell | CL:0000015 | 91.76 | gold quality |
| primordial germ cell in gonad | CL:0000670 ∩ UBERON:0000991 | 85.12 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 83.19 | gold quality |
| ganglionic eminence | UBERON:0004023 | 82.95 | gold quality |
| apex of heart | UBERON:0002098 | 82.77 | gold quality |
| stromal cell of endometrium | CL:0002255 | 82.37 | gold quality |
| granulocyte | CL:0000094 | 82.14 | gold quality |
| ventricular zone | UBERON:0003053 | 81.68 | gold quality |
| right lobe of liver | UBERON:0001114 | 81.66 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 81.33 | gold quality |
| left ovary | UBERON:0002119 | 80.61 | gold quality |
| gastrocnemius | UBERON:0001388 | 80.50 | gold quality |
| right ovary | UBERON:0002118 | 80.14 | gold quality |
| muscle of leg | UBERON:0001383 | 80.11 | gold quality |
| mucosa of stomach | UBERON:0001199 | 79.95 | gold quality |
| mucosa of transverse colon | UBERON:0004991 | 79.89 | gold quality |
| leukocyte | CL:0000738 | 79.77 | gold quality |
| heart left ventricle | UBERON:0002084 | 79.76 | gold quality |
| monocyte | CL:0000576 | 79.70 | gold quality |
| muscle layer of sigmoid colon | UBERON:0035805 | 79.67 | gold quality |
| mononuclear cell | CL:0000842 | 79.64 | gold quality |
| cardiac ventricle | UBERON:0002082 | 79.53 | gold quality |
| ovary | UBERON:0000992 | 79.43 | gold quality |
| lower esophagus | UBERON:0013473 | 79.05 | gold quality |
| lower esophagus muscularis layer | UBERON:0035833 | 79.05 | gold quality |
| esophagogastric junction muscularis propria | UBERON:0035841 | 78.99 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 0.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-MTAB-7606 | no | 128.77 |
| E-ANND-3 | no | 2.43 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
49 targeting MRGBP, 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-190A-3P | 100.00 | 80.35 | 5520 |
| HSA-MIR-548AJ-3P | 99.96 | 73.38 | 5345 |
| HSA-MIR-548X-3P | 99.96 | 73.38 | 5345 |
| HSA-MIR-101-3P | 99.94 | 75.03 | 2230 |
| HSA-MIR-144-3P | 99.94 | 73.98 | 2698 |
| HSA-MIR-548J-3P | 99.94 | 72.61 | 4881 |
| HSA-MIR-218-5P | 99.93 | 72.22 | 2103 |
| HSA-MIR-548AE-3P | 99.93 | 72.66 | 4867 |
| HSA-MIR-548AH-3P | 99.93 | 72.54 | 4872 |
| HSA-MIR-548AM-3P | 99.93 | 72.54 | 4872 |
| HSA-MIR-548AQ-3P | 99.93 | 72.66 | 4867 |
| HSA-MIR-145-5P | 99.92 | 71.13 | 1836 |
| HSA-MIR-5195-3P | 99.92 | 70.92 | 1877 |
| HSA-MIR-137-3P | 99.87 | 74.74 | 2401 |
| HSA-MIR-6842-5P | 99.80 | 67.54 | 1587 |
| HSA-MIR-7110-5P | 99.80 | 67.84 | 1712 |
| HSA-MIR-1827 | 99.63 | 68.57 | 3265 |
| HSA-MIR-6132 | 99.60 | 65.83 | 1554 |
| HSA-MIR-6836-5P | 99.60 | 65.62 | 1538 |
| HSA-MIR-1290 | 99.59 | 69.90 | 2079 |
| HSA-MIR-6752-5P | 99.59 | 67.32 | 1243 |
| HSA-MIR-2113 | 99.58 | 71.22 | 1521 |
| HSA-MIR-3942-3P | 99.57 | 69.03 | 2854 |
| HSA-MIR-12122 | 99.56 | 69.33 | 1672 |
| HSA-MIR-17-3P | 99.55 | 66.77 | 1311 |
| HSA-MIR-582-5P | 99.47 | 70.79 | 2635 |
| HSA-MIR-766-5P | 99.47 | 67.91 | 2225 |
| HSA-MIR-103A-2-5P | 99.39 | 67.72 | 1577 |
| HSA-MIR-6868-5P | 99.06 | 65.69 | 1284 |
| HSA-MIR-628-3P | 99.04 | 68.37 | 814 |
Functional genomics
DepMap (CRISPR cell-line fitness): dependent in 87.8% of screened cell lines.
Literature-anchored findings (GeneRIF, showing 7)
- MRGBP is encoded by the FLJ10914 ORF and is a new component of the TRRAP/TIP60 HAT complex (PMID:12963728)
- These results suggest that C20orf20 protein has an important function in proliferation of cancer cells through the regulation of BRD8 protein. (PMID:20051959)
- MRGBP contributes to colorectal carcinogenesis through rendering advantages in cell proliferation and/or division of cancer cells. (PMID:21535316)
- role in tumorogenesis of cutaneous squamous cell carcinoma (PMID:21602893)
- MRGBP, a member of the NuA4 complex, inhibits DNA double-strand break repair. (PMID:33354938)
- MRGBP is a potential novel prognostic biomarker and is correlated with immune infiltrates in hepatocellular carcinoma. (PMID:33761715)
- MRGBP promotes colorectal cancer metastasis via DKK1/Wnt/beta-catenin and NF-kB/p65 pathways mediated EMT. (PMID:36208716)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | mrgbp | ENSDARG00000028894 |
| mus_musculus | Mrgbp | ENSMUSG00000027569 |
| rattus_norvegicus | Mrgbp | ENSRNOG00000059891 |
| drosophila_melanogaster | MrgBP | FBGN0033341 |
Protein
Protein identifiers
MRG/MORF4L-binding protein — Q9NV56 (reviewed: Q9NV56)
Alternative names: MRG-binding protein, Up-regulated in colon cancer 4
All UniProt accessions (1): Q9NV56
UniProt curated annotations — full annotation on UniProt →
Function. Component of the NuA4 histone acetyltransferase (HAT) complex which is involved in transcriptional activation of select genes principally by acetylation of nucleosomal histones H4 and H2A. This modification may both alter nucleosome - DNA interactions and promote interaction of the modified histones with other proteins which positively regulate transcription. This complex may be required for the activation of transcriptional programs associated with oncogene and proto-oncogene mediated growth induction, tumor suppressor mediated growth arrest and replicative senescence, apoptosis, and DNA repair. NuA4 may also play a direct role in DNA repair when recruited to sites of DNA damage.
Subunit / interactions. Component of the NuA4 histone acetyltransferase complex which contains the catalytic subunit KAT5/TIP60 and the subunits EP400, TRRAP/PAF400, BRD8/SMAP, EPC1, DMAP1/DNMAP1, RUVBL1/TIP49, RUVBL2, ING3, actin, ACTL6A/BAF53A, MORF4L1/MRG15, MORF4L2/MRGX, MRGBP, YEATS4/GAS41, VPS72/YL1 and MEAF6. The NuA4 complex interacts with MYC and the adenovirus E1A protein. MRGBP may interact directly with MORF4L1/MRG15 and MORF4L2/MRGX.
Subcellular location. Nucleus.
Similarity. Belongs to the EAF7 family.
RefSeq proteins (1): NP_060740* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR012423 | Eaf7/MRGBP | Family |
Pfam: PF07904
UniProt features (19 total): modified residue 5, helix 4, compositionally biased region 4, region of interest 2, initiator methionine 1, chain 1, cross-link 1, turn 1
Structure
Experimental structures (PDB)
1 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 2N1D | SOLUTION NMR |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9NV56-F1 | 67.25 | 0.17 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Post-translational modifications (6): 23, 191, 195, 127, 2, 22
Function
Pathways and Gene Ontology
Reactome pathways
3 pathways
| ID | Pathway |
|---|---|
| R-HSA-3214847 | HATs acetylate histones |
| R-HSA-3247509 | Chromatin modifying enzymes |
| R-HSA-4839726 | Chromatin organization |
MSigDB gene sets: 115 (showing top):
GOBP_REGULATION_OF_DOUBLE_STRAND_BREAK_REPAIR, GOBP_REGULATION_OF_DNA_RECOMBINATION, GOBP_REGULATION_OF_DOUBLE_STRAND_BREAK_REPAIR_VIA_HOMOLOGOUS_RECOMBINATION, ACTGCAG_MIR173P, GOBP_REGULATION_OF_DNA_REPAIR, BLALOCK_ALZHEIMERS_DISEASE_UP, GOBP_REGULATION_OF_CELL_CYCLE, GOBP_REGULATION_OF_RESPONSE_TO_STRESS, GOBP_DNA_DAMAGE_RESPONSE, GOBP_POSITIVE_REGULATION_OF_DNA_REPAIR, GOBP_REGULATION_OF_CELLULAR_RESPONSE_TO_STRESS, GOBP_POSITIVE_REGULATION_OF_DNA_RECOMBINATION, LOPEZ_MESOTHELIOMA_SURVIVAL_WORST_VS_BEST_UP, GOBP_RECOMBINATIONAL_REPAIR, MODULE_48
GO Biological Process (8): chromatin organization (GO:0006325), regulation of transcription by RNA polymerase II (GO:0006357), regulation of apoptotic process (GO:0042981), positive regulation of DNA-templated transcription (GO:0045893), regulation of cell cycle (GO:0051726), positive regulation of double-strand break repair via homologous recombination (GO:1905168), regulation of double-strand break repair (GO:2000779), regulation of DNA-templated transcription (GO:0006355)
GO Molecular Function (1): protein binding (GO:0005515)
GO Cellular Component (5): nucleosome (GO:0000786), nucleoplasm (GO:0005654), NuA4 histone acetyltransferase complex (GO:0035267), nucleus (GO:0005634), H4/H2A histone acetyltransferase complex (GO:0043189)
Reactome top-level categories
Rollup of top-2 pathways:
| Category | Pathways |
|---|---|
| Chromatin modifying enzymes | 1 |
| Chromatin organization | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| regulation of DNA-templated transcription | 2 |
| DNA-templated transcription | 2 |
| cellular component organization | 1 |
| transcription by RNA polymerase II | 1 |
| apoptotic process | 1 |
| regulation of programmed cell death | 1 |
| positive regulation of RNA biosynthetic process | 1 |
| cell cycle | 1 |
| regulation of cellular process | 1 |
| double-strand break repair via homologous recombination | 1 |
| regulation of double-strand break repair via homologous recombination | 1 |
| positive regulation of DNA recombination | 1 |
| positive regulation of double-strand break repair | 1 |
| regulation of DNA repair | 1 |
| double-strand break repair | 1 |
| regulation of gene expression | 1 |
| regulation of RNA biosynthetic process | 1 |
| binding | 1 |
| chromatin | 1 |
| protein-DNA complex | 1 |
| nuclear lumen | 1 |
| cellular anatomical structure | 1 |
| H4/H2A histone acetyltransferase complex | 1 |
| intracellular membrane-bounded organelle | 1 |
| H4 histone acetyltransferase complex | 1 |
Protein interactions and networks
STRING
1210 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| MRGBP | MORF4L1 | Q9UBU8 | 998 |
| MRGBP | MORF4L2 | Q15014 | 991 |
| MRGBP | TRRAP | Q9Y4A5 | 947 |
| MRGBP | YEATS4 | O95619 | 920 |
| MRGBP | DMAP1 | Q9NPF5 | 910 |
| MRGBP | KAT5 | Q92993 | 872 |
| MRGBP | MEAF6 | Q9HAF1 | 866 |
| MRGBP | BRD8 | Q9H0E9 | 804 |
| MRGBP | ING3 | Q9NXR8 | 754 |
| MRGBP | RUVBL1 | P82276 | 717 |
| MRGBP | EPC1 | Q9H2F5 | 714 |
| MRGBP | RUVBL2 | Q9Y230 | 708 |
| MRGBP | TADA3 | O75528 | 703 |
| MRGBP | MRFAP1 | Q9Y605 | 703 |
| MRGBP | EPC2 | Q52LR7 | 650 |
IntAct
136 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| MRGBP | MORF4L2 | psi-mi:“MI:0915”(physical association) | 0.940 |
| MORF4L2 | MRGBP | psi-mi:“MI:0915”(physical association) | 0.940 |
| MRGBP | MORF4L1 | psi-mi:“MI:0915”(physical association) | 0.910 |
| MORF4L1 | MRGBP | psi-mi:“MI:0915”(physical association) | 0.900 |
| MRGBP | MORF4L1 | psi-mi:“MI:0915”(physical association) | 0.900 |
| MORF4L1 | MRGBP | psi-mi:“MI:0407”(direct interaction) | 0.900 |
| RUVBL1 | ZNHIT1 | psi-mi:“MI:0914”(association) | 0.860 |
| MRGBP | YEATS4 | psi-mi:“MI:0914”(association) | 0.840 |
| RUVBL2 | ZNHIT1 | psi-mi:“MI:0914”(association) | 0.810 |
| MRGBP | KAT5 | psi-mi:“MI:0914”(association) | 0.790 |
| MRGBP | KAT5 | psi-mi:“MI:0915”(physical association) | 0.790 |
| YEATS4 | ZNHIT1 | psi-mi:“MI:0914”(association) | 0.790 |
| H2AZ1 | ZNHIT1 | psi-mi:“MI:0914”(association) | 0.770 |
| MED23 | MED19 | psi-mi:“MI:2364”(proximity) | 0.770 |
| MRGBP | ACTL6A | psi-mi:“MI:0914”(association) | 0.760 |
BioGRID (227): MRGBP (Two-hybrid), MRGBP (Two-hybrid), KRTAP10-7 (Two-hybrid), NOTCH2NL (Two-hybrid), MRGBP (Two-hybrid), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS), MRGBP (Affinity Capture-MS)
ESM2 similar proteins: A2XKR7, A2YGL9, B1B5D3, B1B5D4, B1B5D5, B4FAF3, B4FT40, C0RWW9, C0SUU6, F4I7L1, F4K5T4, O80450, P0DKL0, P46600, P46602, P46603, P46604, P46665, P46667, Q05466, Q0JCC3, Q10F25, Q10Q07, Q338B0, Q339W7, Q53KK6, Q53KW9, Q5Z6F6, Q657C0, Q6VBB2, Q6WS85, Q7Y214, Q84MN7, Q8H1D7, Q8VYD2, Q8VZ20, Q8W4L5, Q944N1, Q94F39, Q9ASZ1
Diamond homologs: O42924, Q5A6Q7, Q6BKL0, Q6CF40, Q6CX31, Q9DAT2, Q9NV56, P53911
SIGNOR signaling
1 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| MRGBP | “form complex” | “NuA4 complex” | binding |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 82 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.
Reactome pathways:
| Pathway | Partners | Fold | FDR |
|---|---|---|---|
| HATs acetylate histones | 18 | 25.0× | 2e-18 |
| Chromatin organization | 11 | 15.7× | 1e-08 |
| Formation of the beta-catenin:TCF transactivating complex | 7 | 14.8× | 4e-05 |
| Chromatin modifying enzymes | 11 | 13.9× | 3e-08 |
| Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks | 5 | 12.8× | 3e-03 |
| G2/M DNA damage checkpoint | 5 | 10.5× | 5e-03 |
| DNA Repair | 5 | 8.6× | 7e-03 |
| Viral Infection Pathways | 8 | 4.3× | 9e-03 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| regulation of double-strand break repair | 16 | 125.6× | 1e-28 |
| positive regulation of double-strand break repair via homologous recombination | 16 | 82.8× | 3e-25 |
| regulation of DNA replication | 6 | 29.7× | 3e-06 |
| cellular response to estradiol stimulus | 5 | 27.8× | 5e-05 |
| regulation of apoptotic process | 21 | 23.7× | 2e-21 |
| regulation of cell cycle | 18 | 18.1× | 5e-16 |
| double-strand break repair via homologous recombination | 6 | 12.7× | 4e-04 |
| chromatin remodeling | 12 | 11.8× | 3e-08 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
20 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 15 |
| Likely benign | 1 |
| Benign | 0 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
944 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 20:62796668:GTCG:G | donor_gain | 1.0000 |
| 20:62797107:CAG:C | acceptor_loss | 1.0000 |
| 20:62797108:A:AG | acceptor_gain | 1.0000 |
| 20:62797108:A:G | acceptor_loss | 1.0000 |
| 20:62797109:G:GG | acceptor_gain | 1.0000 |
| 20:62797109:GGT:G | acceptor_gain | 1.0000 |
| 20:62797232:G:GG | donor_gain | 1.0000 |
| 20:62798585:A:AG | acceptor_gain | 1.0000 |
| 20:62798585:AGCAT:A | acceptor_gain | 1.0000 |
| 20:62798586:G:GA | acceptor_gain | 1.0000 |
| 20:62798586:GC:G | acceptor_gain | 1.0000 |
| 20:62798586:GCAT:G | acceptor_gain | 1.0000 |
| 20:62798586:GCATG:G | acceptor_gain | 1.0000 |
| 20:62799045:CGATG:C | donor_gain | 1.0000 |
| 20:62799046:GATG:G | donor_gain | 1.0000 |
| 20:62799046:GATGG:G | donor_gain | 1.0000 |
| 20:62799047:ATG:A | donor_gain | 1.0000 |
| 20:62799047:ATGG:A | donor_loss | 1.0000 |
| 20:62799048:TG:T | donor_gain | 1.0000 |
| 20:62799048:TGG:T | donor_loss | 1.0000 |
| 20:62799049:GG:G | donor_gain | 1.0000 |
| 20:62799050:G:GG | donor_gain | 1.0000 |
| 20:62799051:T:A | donor_loss | 1.0000 |
| 20:62799454:A:AG | acceptor_gain | 1.0000 |
| 20:62799455:G:GG | acceptor_gain | 1.0000 |
| 20:62799455:GT:G | acceptor_gain | 1.0000 |
| 20:62799455:GTT:G | acceptor_gain | 1.0000 |
| 20:62799455:GTTT:G | acceptor_gain | 1.0000 |
| 20:62796627:TGG:T | donor_gain | 0.9900 |
| 20:62796664:GCCC:G | donor_gain | 0.9900 |
AlphaMissense
1360 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 20:62796614:T:A | W31R | 1.000 |
| 20:62796614:T:C | W31R | 1.000 |
| 20:62796616:G:C | W31C | 1.000 |
| 20:62796616:G:T | W31C | 1.000 |
| 20:62796629:G:A | E36K | 1.000 |
| 20:62796639:T:A | L39H | 1.000 |
| 20:62796639:T:C | L39P | 1.000 |
| 20:62796641:T:A | F40I | 1.000 |
| 20:62796641:T:C | F40L | 1.000 |
| 20:62796641:T:G | F40V | 1.000 |
| 20:62796642:T:C | F40S | 1.000 |
| 20:62796642:T:G | F40C | 1.000 |
| 20:62796643:C:A | F40L | 1.000 |
| 20:62796643:C:G | F40L | 1.000 |
| 20:62796644:C:G | H41D | 1.000 |
| 20:62796647:G:C | A42P | 1.000 |
| 20:62796648:C:A | A42D | 1.000 |
| 20:62796648:C:T | A42V | 1.000 |
| 20:62796651:T:A | M43K | 1.000 |
| 20:62796651:T:C | M43T | 1.000 |
| 20:62796651:T:G | M43R | 1.000 |
| 20:62796656:G:C | G45R | 1.000 |
| 20:62796657:G:A | G45D | 1.000 |
| 20:62796657:G:T | G45V | 1.000 |
| 20:62796659:C:G | H46D | 1.000 |
| 20:62796662:A:G | K47E | 1.000 |
| 20:62796663:A:T | K47M | 1.000 |
| 20:62796664:G:C | K47N | 1.000 |
| 20:62796664:G:T | K47N | 1.000 |
| 20:62796665:C:A | P48T | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000031625 (20:62802126 C>G), RS1000078923 (20:62795571 G>A), RS1000325278 (20:62797301 G>A,C,T), RS1001401289 (20:62794730 G>A), RS1002384446 (20:62796845 C>A), RS1002431936 (20:62796300 T>G), RS1002482809 (20:62796057 G>A), RS1002765943 (20:62794859 G>T), RS1002821671 (20:62794590 G>A,C), RS1002928406 (20:62800764 C>G,T), RS1004507824 (20:62797606 G>A), RS1004546073 (20:62801546 C>A,T), RS1005524593 (20:62801086 G>A), RS1005774724 (20:62795538 G>A,C), RS1005811928 (20:62801218 A>G)
Disease associations
OMIM: gene MIM:611157 | disease phenotypes: MIM:616409
GenCC curated gene-disease
Mondo (2): developmental and epileptic encephalopathy, 33 (MONDO:0014625), developmental and epileptic encephalopathy (MONDO:0100620)
Orphanet (1): Non-specific early-onset epileptic encephalopathy (Orphanet:442835)
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
0 associations (top):
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
20 total (human), top 20 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| sodium arsenite | decreases expression, increases abundance, increases expression | 2 |
| FR900359 | increases phosphorylation | 1 |
| triphenyl phosphate | affects expression | 1 |
| bisphenol A | increases expression | 1 |
| mono-(2-ethylhexyl)phthalate | increases expression | 1 |
| ICG 001 | decreases expression | 1 |
| Arsenic | increases abundance, increases expression | 1 |
| Benzo(a)pyrene | decreases methylation | 1 |
| Caffeine | decreases phosphorylation | 1 |
| Dimethyl Sulfoxide | increases expression | 1 |
| Doxorubicin | decreases expression | 1 |
| Folic Acid | decreases expression | 1 |
| Ivermectin | decreases expression | 1 |
| Smoke | decreases expression | 1 |
| Thiram | decreases expression | 1 |
| Tobacco Smoke Pollution | increases expression | 1 |
| Valproic Acid | increases methylation | 1 |
| 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide | decreases expression | 1 |
| Cyclosporine | increases expression | 1 |
| Lactic Acid | decreases expression | 1 |
Clinical trials (associated diseases)
22 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT03347526 | PHASE3 | SUSPENDED | A Novel Approach to Infantile Spasms |
| NCT03421496 | PHASE3 | TERMINATED | A Study to Assess Cannabidiol Oral Solution With Vigabatrin as Initial Therapy in Participants With Infantile Spasms |
| NCT06719141 | PHASE3 | RECRUITING | A Study to Investigate LP352 in Children and Adults With Developmental and Epileptic Encephalopathies (DEE) |
| NCT06908226 | PHASE3 | ENROLLING_BY_INVITATION | A Study to Investigate LP352 in Children and Adults With Developmental and Epileptic Encephalopathy (DEE) |
| NCT04289467 | PHASE2 | RECRUITING | Treatment of Refractory Infantile Spasms With Fenfluramine |
| NCT05626634 | PHASE2 | COMPLETED | Open-label, Long-term Safety Study of LP352 in Subjects With Developmental and Epileptic Encephalopathy |
| NCT04727970 | PHASE1 | COMPLETED | Tricaprilin Infantile Spasms Pilot Study |
| NCT06700811 | PHASE1 | RECRUITING | Ketogenic Diet for Prevention of Epileptic Spasms in Infantile Onset Genetic Epilepsies |
| NCT03876444 | PHASE2/PHASE3 | UNKNOWN | Intravenous Methylprednisolone Versus Oral Prednisolone for Infantile Spasms |
| NCT05279118 | PHASE2/PHASE3 | ACTIVE_NOT_RECRUITING | Ketogenic Diet vs ACTH for the Treatment of Children With West Syndrome |
| NCT05364021 | PHASE1/PHASE2 | COMPLETED | Study to Investigate LP352 in Subjects With Developmental and Epileptic Encephalopathies |
| NCT06983158 | PHASE1/PHASE2 | SUSPENDED | A Clinical Trial of CAP-002 Gene Therapy in Pediatric Patients With Syntaxin-Binding Protein 1 (STXBP1) Encephalopathy |
| NCT04937062 | EARLY_PHASE1 | ACTIVE_NOT_RECRUITING | Phenylbutyrate for Monogenetic Developmental and Epileptic Encephalopathy |
| NCT04302116 | Not specified | RECRUITING | Vigabatrin With High Dose Prednisolone Combination Therapy vs Vigabatrin Alone for Infantile Spasm |
| NCT05538936 | Not specified | COMPLETED | The Effect of Spa and Massage on Babies on Colic Symptoms |
| NCT06149663 | Not specified | AVAILABLE | Intermediate-Size Expanded Access Protocol (EAP) for LP352 |
| NCT06266234 | Not specified | RECRUITING | Characterization by Automated System on Infantile Spasmes |
| NCT06380192 | Not specified | RECRUITING | Developmental and Epileptic Encephalopathy of Genetic Etiology: Natural History Through Reuse of Clinical Data |
| NCT07396883 | Not specified | NOT_YET_RECRUITING | Developmental and Epileptic Encephalopathies Diagnosed Via Long-read Genome Sequencing |
| NCT07413211 | Not specified | RECRUITING | Genetic Developmental and Epileptic Encephalopathy Natural History Study for Clinical Trial Readiness |
| NCT07531511 | Not specified | NOT_YET_RECRUITING | SLC6A1-NDD Prospective Longitudinal Natural History Study |
| NCT07585643 | Not specified | NOT_YET_RECRUITING | IBIS - Investigating Reliability of BIS and SEDLINE Monitoring in Children With Developmental and Epileptic Encephalopathies (DEE). |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): developmental and epileptic encephalopathy, developmental and epileptic encephalopathy, 33