OSBPL9
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Summary
OSBPL9 (oxysterol binding protein like 9, HGNC:16386) is a protein-coding gene on chromosome 1p32.3, encoding Oxysterol-binding protein-related protein 9 (Q96SU4). Interacts with OSBPL11 to function as lipid transfer proteins.
This gene encodes a member of the oxysterol-binding protein (OSBP) family, a group of intracellular lipid receptors. Most members contain an N-terminal pleckstrin homology domain and a highly conserved C-terminal OSBP-like sterol-binding domain, although some members contain only the sterol-binding domain. This family member functions as a cholesterol transfer protein that regulates Golgi structure and function. Multiple transcript variants, most of which encode distinct isoforms, have been identified. Related pseudogenes have been identified on chromosomes 3, 11 and 12.
Source: NCBI Gene 114883 — RefSeq curated summary.
At a glance
- Gene–disease (curated): multiple congenital anomalies/dysmorphic syndrome (Limited, GenCC) — +1 more curated relationship
- Clinical variants (ClinVar): 91 total
- MANE Select transcript:
NM_024586
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:16386 |
| Approved symbol | OSBPL9 |
| Name | oxysterol binding protein like 9 |
| Location | 1p32.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000117859 |
| Ensembl biotype | protein_coding |
| OMIM | 606737 |
| Entrez | 114883 |
Gene structure
Transcript identifiers
Ensembl transcripts: 33 — 18 protein_coding, 8 nonsense_mediated_decay, 4 retained_intron, 3 protein_coding_CDS_not_defined
ENST00000361556, ENST00000371714, ENST00000428468, ENST00000435274, ENST00000447887, ENST00000453295, ENST00000462759, ENST00000467064, ENST00000473207, ENST00000475697, ENST00000481937, ENST00000484890, ENST00000486942, ENST00000489990, ENST00000495776, ENST00000524620, ENST00000526917, ENST00000527631, ENST00000528603, ENST00000531061, ENST00000531819, ENST00000531828, ENST00000532975, ENST00000533825, ENST00000533884, ENST00000534040, ENST00000625138, ENST00000888374, ENST00000888375, ENST00000888376, ENST00000888377, ENST00000930350, ENST00000955446
RefSeq mRNA: 15 — MANE Select: NM_024586
NM_001330580, NM_001350208, NM_001350209, NM_001350210, NM_001416292, NM_001416293, NM_001416294, NM_001416295, NM_024586, NM_148904, NM_148905, NM_148906, NM_148907, NM_148908, NM_148909
CCDS: CCDS41332, CCDS41333, CCDS41334, CCDS44145, CCDS55598, CCDS558, CCDS81322
Canonical transcript exons
ENST00000428468 — 24 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001793260 | 51669434 | 51669512 |
| ENSE00003481185 | 51786526 | 51786617 |
| ENSE00003486384 | 51714003 | 51714079 |
| ENSE00003490451 | 51781164 | 51781335 |
| ENSE00003501767 | 51748369 | 51748398 |
| ENSE00003503943 | 51750145 | 51750195 |
| ENSE00003524039 | 51784442 | 51784582 |
| ENSE00003534523 | 51651991 | 51652041 |
| ENSE00003539928 | 51765822 | 51765981 |
| ENSE00003580506 | 51776833 | 51776918 |
| ENSE00003587523 | 51785808 | 51785886 |
| ENSE00003587815 | 51760690 | 51760780 |
| ENSE00003601788 | 51745536 | 51745631 |
| ENSE00003604282 | 51746710 | 51746757 |
| ENSE00003616646 | 51783915 | 51784025 |
| ENSE00003624804 | 51756320 | 51756358 |
| ENSE00003626858 | 51617092 | 51617221 |
| ENSE00003629614 | 51761867 | 51761971 |
| ENSE00003639693 | 51772605 | 51772723 |
| ENSE00003640826 | 51782559 | 51782643 |
| ENSE00003644934 | 51772070 | 51772182 |
| ENSE00003661711 | 51787353 | 51787488 |
| ENSE00003694166 | 51784264 | 51784327 |
| ENSE00003846040 | 51787715 | 51789219 |
Expression profiles
Bgee: expression breadth ubiquitous, 288 present calls, max score 99.13.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 57.1024 / max 461.7969, expressed in 1826 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 2849 | 38.9983 | 1814 |
| 2854 | 16.6547 | 1695 |
| 2855 | 1.4493 | 761 |
Top tissues by expression
288 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| calcaneal tendon | UBERON:0003701 | 99.13 | gold quality |
| right lung | UBERON:0002167 | 97.60 | gold quality |
| popliteal artery | UBERON:0002250 | 97.54 | gold quality |
| tibial artery | UBERON:0007610 | 97.54 | gold quality |
| sural nerve | UBERON:0015488 | 97.36 | gold quality |
| adrenal tissue | UBERON:0018303 | 97.36 | gold quality |
| choroid plexus epithelium | UBERON:0003911 | 97.18 | gold quality |
| renal medulla | UBERON:0000362 | 97.16 | gold quality |
| blood vessel layer | UBERON:0004797 | 97.04 | gold quality |
| tibial nerve | UBERON:0001323 | 97.01 | gold quality |
| pigmented layer of retina | UBERON:0001782 | 96.86 | gold quality |
| aorta | UBERON:0000947 | 96.79 | gold quality |
| mucosa of stomach | UBERON:0001199 | 96.69 | gold quality |
| right coronary artery | UBERON:0001625 | 96.69 | gold quality |
| left ovary | UBERON:0002119 | 96.60 | gold quality |
| germinal epithelium of ovary | UBERON:0001304 | 96.58 | gold quality |
| palpebral conjunctiva | UBERON:0001812 | 96.55 | gold quality |
| gastrocnemius | UBERON:0001388 | 96.48 | gold quality |
| urethra | UBERON:0000057 | 96.34 | gold quality |
| metanephros | UBERON:0000081 | 96.32 | gold quality |
| colonic epithelium | UBERON:0000397 | 96.32 | gold quality |
| right ovary | UBERON:0002118 | 96.30 | gold quality |
| descending thoracic aorta | UBERON:0002345 | 96.26 | gold quality |
| body of uterus | UBERON:0009853 | 96.25 | gold quality |
| muscle of leg | UBERON:0001383 | 96.24 | gold quality |
| corpus callosum | UBERON:0002336 | 96.24 | gold quality |
| left coronary artery | UBERON:0001626 | 96.16 | gold quality |
| right adrenal gland cortex | UBERON:0035827 | 96.11 | gold quality |
| body of pancreas | UBERON:0001150 | 96.09 | gold quality |
| epithelium of nasopharynx | UBERON:0001951 | 96.07 | gold quality |
Single-cell (SCXA)
Detected in 4 experiment(s), a significant marker in 3.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-GEOD-100618 | yes | 398.79 |
| E-ANND-3 | yes | 11.64 |
| E-MTAB-9388 | yes | 6.96 |
| E-MTAB-7303 | no | 116.61 |
Regulation
Is transcription factor: no
Literature-anchored findings (GeneRIF, showing 6)
- Furthermore, mammalian target of rapamycin was implicated in ORP9L phosphorylation in HEK293 cells. These studies identify ORP9 as a PDK-2 substrate and negative regulator of Akt phosphorylation at the PDK-2 site. (PMID:16962287)
- MicroRNA-125a-5p may partly provide post-transcriptional regulation of the proinflammatory response, lipid uptake, and expression of ORP9 in oxLDL-stimulated monocyte/macrophages. (PMID:19377067)
- Includes data showing N-alpha terminal acetylation of this protein (OSBL9_HUMAN), which begins with nASIMEGPLSK following cleavage of the initiating Met-1 residue. (PMID:19413330)
- The results identify ORP11 as an OSBP homologue distributing at the Golgi-LE interface and define the ORP9-ORP11 dimer as a functional unit that may act as an intracellular lipid sensor or transporter. (PMID:20599956)
- T allele of rs768529 may be a risk factor for the formation of the carotid vulnerable plaque in Chinese Hunan Han population (PMID:24190612)
- These studies identify ORP9 as a dual sterol/PI-4P binding protein that could regulate PI-4P in the Golgi apparatus. (PMID:25255026)
Cross-species orthologs
6 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | osbpl9 | ENSDARG00000069298 |
| mus_musculus | Osbpl9 | ENSMUSG00000028559 |
| rattus_norvegicus | Osbpl9 | ENSRNOG00000033593 |
| drosophila_melanogaster | CG1513 | FBGN0033463 |
| drosophila_melanogaster | CG9205 | FBGN0035181 |
| caenorhabditis_elegans | obr-4 | WBGENE00016331 |
Paralogs (11): OSBPL7 (ENSG00000006025), OSBPL5 (ENSG00000021762), OSBPL3 (ENSG00000070882), OSBPL6 (ENSG00000079156), OSBPL8 (ENSG00000091039), OSBP (ENSG00000110048), OSBPL2 (ENSG00000130703), OSBPL1A (ENSG00000141447), OSBPL10 (ENSG00000144645), OSBPL11 (ENSG00000144909), OSBP2 (ENSG00000184792)
Protein
Protein identifiers
Oxysterol-binding protein-related protein 9 — Q96SU4 (reviewed: Q96SU4)
All UniProt accessions (12): Q96SU4, A0A096LPC8, E9PJ80, E9PK98, E9PKX6, E9PLH0, E9PNR1, G8JLK0, H0YCW0, H0YDB5, H0YE19, H0YE93
UniProt curated annotations — full annotation on UniProt →
Function. Interacts with OSBPL11 to function as lipid transfer proteins. Together they form a heterodimer that localizes at the ER-trans-Golgi membrane contact sites, and exchanges phosphatidylserine (1,2-diacyl-sn-glycero-3-phospho-L-serine, PS) for phosphatidylinositol-4-phosphate (1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol 4-phosphate), PI(4)P) between the two organelles, a step that is critical for sphingomyelin synthesis in the Golgi complex.
Subunit / interactions. Heterodimer with OSBPL11. Interacts with OSBPL10.
Subcellular location. Late endosome membrane. Golgi apparatus. trans-Golgi network membrane.
Tissue specificity. Widely expressed.
Similarity. Belongs to the OSBP family.
Isoforms (7)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q96SU4-1 | 1 | yes |
| Q96SU4-2 | 2 | |
| Q96SU4-3 | 3 | |
| Q96SU4-4 | 4 | |
| Q96SU4-5 | 5 | |
| Q96SU4-6 | 6 | |
| Q96SU4-7 | 7 |
RefSeq proteins (15): NP_001317509, NP_001337137, NP_001337138, NP_001337139, NP_001403221, NP_001403222, NP_001403223, NP_001403224, NP_078862, NP_683702, NP_683703, NP_683704, NP_683705, NP_683706, NP_683707 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000648 | Oxysterol-bd | Family |
| IPR001849 | PH_domain | Domain |
| IPR011993 | PH-like_dom_sf | Homologous_superfamily |
| IPR018494 | Oxysterol-bd_CS | Conserved_site |
| IPR037239 | OSBP_sf | Homologous_superfamily |
Pfam: PF00169, PF01237
Catalyzed reactions (Rhea), 1 shown:
- a 1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol 4-phosphate)(out) + a 1,2-diacyl-sn-glycero-3-phospho-L-serine(in) = a 1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol 4-phosphate)(in) + a 1,2-diacyl-sn-glycero-3-phospho-L-serine(out) (RHEA:81667)
UniProt features (23 total): modified residue 7, splice variant 6, compositionally biased region 3, sequence conflict 2, initiator methionine 1, chain 1, domain 1, sequence variant 1, region of interest 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q96SU4-F1 | 77.10 | 0.46 |
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 (7): 325, 326, 329, 611, 2, 306, 324
Function
Pathways and Gene Ontology
Reactome pathways
1 pathways
| ID | Pathway |
|---|---|
| R-HSA-192105 | Synthesis of bile acids and bile salts |
MSigDB gene sets: 216 (showing top):
ATF_B, RRAGTTGT_UNKNOWN, DORSAM_HOXA9_TARGETS_UP, GOBP_VACUOLE_ORGANIZATION, MODULE_255, GOCC_VACUOLAR_MEMBRANE, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, DITTMER_PTHLH_TARGETS_UP, MODULE_317, CREBP1_Q2, GOBP_MONOCARBOXYLIC_ACID_METABOLIC_PROCESS, GOBP_ORGANIC_ACID_BIOSYNTHETIC_PROCESS, SP1_Q2_01, GOBP_ORGANIC_HYDROXY_COMPOUND_TRANSPORT
GO Biological Process (4): bile acid biosynthetic process (GO:0006699), intermembrane lipid transfer (GO:0120009), lipid transport (GO:0006869), sterol transport (GO:0015918)
GO Molecular Function (4): sterol binding (GO:0032934), sterol transfer activity (GO:0120015), protein binding (GO:0005515), lipid binding (GO:0008289)
GO Cellular Component (7): Golgi apparatus (GO:0005794), cytosol (GO:0005829), membrane (GO:0016020), late endosome membrane (GO:0031902), protein-containing complex (GO:0032991), transporter complex (GO:1990351), endosome (GO:0005768)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Bile acid and bile salt metabolism | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| lipid transport | 2 |
| binding | 2 |
| cytoplasm | 2 |
| endomembrane system | 2 |
| cellular anatomical structure | 2 |
| bile acid metabolic process | 1 |
| monocarboxylic acid biosynthetic process | 1 |
| membrane organization | 1 |
| transport | 1 |
| lipid localization | 1 |
| organic hydroxy compound transport | 1 |
| steroid binding | 1 |
| sterol transport | 1 |
| sterol binding | 1 |
| lipid transfer activity | 1 |
| intracellular membrane-bounded organelle | 1 |
| late endosome | 1 |
| endosome membrane | 1 |
| cellular_component | 1 |
| protein-containing complex | 1 |
| cytoplasmic vesicle | 1 |
Protein interactions and networks
STRING
984 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| OSBPL9 | VAPA | Q9P0L0 | 913 |
| OSBPL9 | VAPB | O95292 | 830 |
| OSBPL9 | OSBP2 | Q969R2 | 671 |
| OSBPL9 | OSBP | P22059 | 612 |
| OSBPL9 | OSBPL3 | Q9H4L5 | 599 |
| OSBPL9 | PLEK2 | Q9NYT0 | 543 |
| OSBPL9 | OSBPL5 | Q9H0X9 | 516 |
| OSBPL9 | PLEK | P08567 | 511 |
| OSBPL9 | OSBPL7 | Q9BZF2 | 496 |
| OSBPL9 | PTDSS1 | P48651 | 460 |
| OSBPL9 | CFAP77 | Q6ZQR2 | 446 |
| OSBPL9 | IFRD2 | Q12894 | 446 |
| OSBPL9 | GFM2 | Q969S9 | 432 |
| OSBPL9 | TTC39A | Q5SRH9 | 423 |
| OSBPL9 | HADH | Q16836 | 421 |
IntAct
71 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| OSBPL9 | VAPB | psi-mi:“MI:0914”(association) | 0.790 |
| OSBPL9 | OSBPL11 | psi-mi:“MI:0915”(physical association) | 0.780 |
| OSBPL11 | OSBPL9 | psi-mi:“MI:0915”(physical association) | 0.780 |
| OSBPL11 | VAPB | psi-mi:“MI:0914”(association) | 0.730 |
| VAPB | FAM83G | psi-mi:“MI:0914”(association) | 0.730 |
| VAPB | PITPNM1 | psi-mi:“MI:0914”(association) | 0.730 |
| CFTR | ESYT2 | psi-mi:“MI:2364”(proximity) | 0.710 |
| VAPA | FAM83G | psi-mi:“MI:0914”(association) | 0.640 |
| VAPA | PITPNM1 | psi-mi:“MI:0914”(association) | 0.640 |
| OSBPL10 | OSBPL9 | psi-mi:“MI:0915”(physical association) | 0.630 |
| CFAP36 | SNTB2 | psi-mi:“MI:0914”(association) | 0.620 |
| RAB11A | CHML | psi-mi:“MI:2364”(proximity) | 0.610 |
| IGF1R | PIK3R2 | psi-mi:“MI:2364”(proximity) | 0.590 |
| CYP1A1 | SNX3 | psi-mi:“MI:0914”(association) | 0.530 |
| DNAJA1 | DNAJA2 | psi-mi:“MI:0914”(association) | 0.530 |
| ACOT8 | PML | psi-mi:“MI:0914”(association) | 0.530 |
| ALG3 | OSBPL9 | psi-mi:“MI:0915”(physical association) | 0.510 |
BioGRID (152): OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Two-hybrid), OSBPL9 (Co-fractionation), OSBPL9 (Co-fractionation), OSBPL9 (Affinity Capture-MS), OSBPL9 (Synthetic Lethality), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS), OSBPL9 (Affinity Capture-MS)
ESM2 similar proteins: A2A8Z1, A8Y5H7, D2KC46, D3YXJ0, D3ZY60, E9PUQ8, F1M386, F1MS15, F1MSG6, F1PBJ0, O35889, O80866, O94512, O94830, P16258, P22059, P36583, P55196, Q0IJ05, Q15057, Q3B7Z2, Q3UYK3, Q5FVC7, Q5QNQ6, Q5R9W4, Q64398, Q6IVG4, Q6ZQK5, Q6ZT07, Q80W71, Q80Y98, Q86XP1, Q8BXR9, Q8CHG7, Q8CI95, Q8K4M9, Q8L751, Q91XL9, Q92503, Q93Y40
Diamond homologs: A0A2Z4HQ03, A2A8Z1, A8IAD8, O43021, O74178, P0C199, P35843, P35844, P54549, Q02201, Q0IJ05, Q5R9W4, Q96SU4, Q9H4L5, Q9UUA1, Q9UW21, Q9UW25, B9EJ86, O80866, P38755, Q54NM4, Q5M7Y0, Q5R6M6, Q6NRZ4, Q6P3Q6, Q6VVX2, Q86KG4, Q8BX94, Q8CI95, Q9BXB4, Q9BXB5, Q9BZF1, Q9EQG9, Q9ER64, Q9GKI7, Q9H0X9, Q9H1P3, Q9Y5P4, S4R1M9, O94512
SIGNOR signaling
0 interactions.
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 66 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 |
|---|---|---|---|
| endoplasmic reticulum to Golgi vesicle-mediated transport | 5 | 11.5× | 6e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
91 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 67 |
| Likely benign | 0 |
| Benign | 0 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
5497 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 1:51617217:ACACG:A | donor_gain | 1.0000 |
| 1:51617218:CACG:C | donor_gain | 1.0000 |
| 1:51617219:ACG:A | donor_gain | 1.0000 |
| 1:51617220:CG:C | donor_gain | 1.0000 |
| 1:51617221:GG:G | donor_gain | 1.0000 |
| 1:51617222:G:GA | donor_loss | 1.0000 |
| 1:51617222:G:GG | donor_gain | 1.0000 |
| 1:51651989:A:AG | acceptor_gain | 1.0000 |
| 1:51651990:G:GA | acceptor_gain | 1.0000 |
| 1:51652040:GA:G | donor_gain | 1.0000 |
| 1:51652042:G:GG | donor_gain | 1.0000 |
| 1:51713996:A:AG | acceptor_gain | 1.0000 |
| 1:51713997:TTCCA:T | acceptor_loss | 1.0000 |
| 1:51713998:TCCAG:T | acceptor_loss | 1.0000 |
| 1:51713999:CCAGC:C | acceptor_loss | 1.0000 |
| 1:51714000:CAGC:C | acceptor_loss | 1.0000 |
| 1:51714001:A:AG | acceptor_gain | 1.0000 |
| 1:51714001:A:C | acceptor_loss | 1.0000 |
| 1:51714001:AGCCC:A | acceptor_gain | 1.0000 |
| 1:51714002:G:GT | acceptor_gain | 1.0000 |
| 1:51714002:GC:G | acceptor_gain | 1.0000 |
| 1:51714002:GCC:G | acceptor_gain | 1.0000 |
| 1:51714002:GCCC:G | acceptor_gain | 1.0000 |
| 1:51714002:GCCCG:G | acceptor_gain | 1.0000 |
| 1:51714076:TCAAG:T | donor_loss | 1.0000 |
| 1:51714079:AGTAA:A | donor_loss | 1.0000 |
| 1:51714080:G:GG | donor_gain | 1.0000 |
| 1:51714080:G:T | donor_loss | 1.0000 |
| 1:51714081:TAAGG:T | donor_loss | 1.0000 |
| 1:51745531:TCTA:T | acceptor_loss | 1.0000 |
AlphaMissense
4895 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 1:51617129:G:A | G7R | 1.000 |
| 1:51617129:G:C | G7R | 1.000 |
| 1:51617129:G:T | G7W | 1.000 |
| 1:51617130:G:A | G7E | 1.000 |
| 1:51617136:T:A | L9Q | 1.000 |
| 1:51617136:T:C | L9P | 1.000 |
| 1:51617141:A:C | K11Q | 1.000 |
| 1:51617141:A:G | K11E | 1.000 |
| 1:51617142:A:T | K11I | 1.000 |
| 1:51617143:A:C | K11N | 1.000 |
| 1:51617143:A:T | K11N | 1.000 |
| 1:51617144:T:A | W12R | 1.000 |
| 1:51617144:T:C | W12R | 1.000 |
| 1:51617145:G:C | W12S | 1.000 |
| 1:51617146:G:C | W12C | 1.000 |
| 1:51617146:G:T | W12C | 1.000 |
| 1:51617147:A:G | T13A | 1.000 |
| 1:51617148:C:T | T13I | 1.000 |
| 1:51617152:C:A | N14K | 1.000 |
| 1:51617152:C:G | N14K | 1.000 |
| 1:51617162:G:A | G18S | 1.000 |
| 1:51617162:G:C | G18R | 1.000 |
| 1:51617162:G:T | G18C | 1.000 |
| 1:51617163:G:A | G18D | 1.000 |
| 1:51617163:G:T | G18V | 1.000 |
| 1:51617165:T:A | W19R | 1.000 |
| 1:51617165:T:C | W19R | 1.000 |
| 1:51617166:G:C | W19S | 1.000 |
| 1:51617167:G:C | W19C | 1.000 |
| 1:51617167:G:T | W19C | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000024022 (1:51741212 C>T), RS1000029642 (1:51697467 T>A), RS1000056451 (1:51740827 T>C), RS1000099704 (1:51699082 T>G), RS1000102357 (1:51664138 A>G), RS1000111214 (1:51714158 T>A), RS1000137758 (1:51682218 A>G), RS1000151508 (1:51761839 C>A), RS1000153724 (1:51733389 G>A,T), RS1000156306 (1:51788151 G>A,C,T), RS1000171090 (1:51733143 A>G), RS1000176665 (1:51781447 A>G), RS1000191924 (1:51682488 G>A,C), RS1000194889 (1:51768782 C>T), RS1000242800 (1:51788718 G>T)
Disease associations
OMIM: gene MIM:606737 | disease phenotypes:
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| multiple congenital anomalies/dysmorphic syndrome | Limited | Autosomal recessive |
| complex neurodevelopmental disorder | Limited | Autosomal dominant |
Mondo (3): infantile epilepsy syndrome (MONDO:0020071), multiple congenital anomalies/dysmorphic syndrome (MONDO:0019042), complex neurodevelopmental disorder (MONDO:0100038)
Orphanet (1): OBSOLETE: Infantile epilepsy syndrome (Orphanet:98258)
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
32 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| sodium arsenite | increases abundance, decreases expression, affects cotreatment | 3 |
| bisphenol A | decreases expression, increases expression | 2 |
| methacrylaldehyde | affects cotreatment, increases expression, decreases expression, increases abundance | 2 |
| Acrolein | increases abundance, affects cotreatment, increases expression, decreases expression | 2 |
| Air Pollutants | decreases expression, affects cotreatment, increases abundance, increases expression | 2 |
| Ozone | affects cotreatment, increases expression, decreases expression, increases abundance | 2 |
| bisphenol F | increases expression | 1 |
| dicrotophos | decreases expression | 1 |
| alpha phellandrene | increases expression | 1 |
| alpha-pinene | affects cotreatment, increases expression, increases abundance | 1 |
| beta-lapachone | decreases expression, increases expression | 1 |
| manganese chloride | increases abundance, affects cotreatment, decreases expression | 1 |
| aflatoxin B2 | decreases methylation | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| pentabrominated diphenyl ether 100 | increases expression | 1 |
| bisphenol S | increases expression | 1 |
| Ethanol | decreases expression, increases abundance, affects cotreatment | 1 |
| Arsenic | increases abundance, affects cotreatment, decreases expression | 1 |
| Benzo(a)pyrene | decreases methylation | 1 |
| Caffeine | affects phosphorylation | 1 |
| Enzyme Inhibitors | increases O-linked glycosylation, decreases activity | 1 |
| Gasoline | affects cotreatment, decreases expression, increases abundance | 1 |
| Ivermectin | decreases expression | 1 |
| Lead | affects splicing | 1 |
| Manganese | affects cotreatment, decreases expression, increases abundance | 1 |
| Pesticides | affects methylation | 1 |
| Polycyclic Aromatic Hydrocarbons | affects cotreatment, decreases expression, increases abundance | 1 |
| Testosterone | decreases expression | 1 |
| Valproic Acid | affects expression | 1 |
Clinical trials (associated diseases)
2 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT06310681 | Not specified | COMPLETED | Pilot Testing of a Co-adapted Group Programme for Parents/Carers of Children With Complex Neurodisability |
| NCT07303049 | Not specified | NOT_YET_RECRUITING | Cognitive Benefit of Intensive Rehabilitation Using Rhythmic Music Training in Children With Complex Neurodevelopmental Disorder |
Related Atlas pages
- Associated diseases: multiple congenital anomalies/dysmorphic syndrome, complex neurodevelopmental disorder
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): complex neurodevelopmental disorder, infantile epilepsy syndrome, multiple congenital anomalies/dysmorphic syndrome