ITSN1
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Also known as SH3P17MGC134948MGC134949
Summary
ITSN1 (intersectin 1, HGNC:6183) is a protein-coding gene on chromosome 21q22.11, encoding Intersectin-1 (Q15811). Adapter protein that provides a link between the endocytic membrane traffic and the actin assembly machinery.
The protein encoded by this gene is a cytoplasmic membrane-associated protein that indirectly coordinates endocytic membrane traffic with the actin assembly machinery. In addition, the encoded protein may regulate the formation of clathrin-coated vesicles and could be involved in synaptic vesicle recycling. This protein has been shown to interact with dynamin, CDC42, SNAP23, SNAP25, SPIN90, EPS15, EPN1, EPN2, and STN2. Multiple transcript variants encoding different isoforms have been found for this gene, but the full-length nature of only two of them have been characterized so far.
Source: NCBI Gene 6453 — RefSeq curated summary.
At a glance
- Gene–disease (curated): nephrotic syndrome (Strong, GenCC) — +1 more curated relationship
- GWAS associations: 16
- Clinical variants (ClinVar): 468 total — 17 pathogenic, 6 likely-pathogenic
- Phenotypes (HPO): 1
- Druggable target: yes
- Dosage sensitivity (ClinGen): haploinsufficiency little evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_003024
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:6183 |
| Approved symbol | ITSN1 |
| Name | intersectin 1 |
| Location | 21q22.11 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | SH3P17, MGC134948, MGC134949 |
| Ensembl gene | ENSG00000205726 |
| Ensembl biotype | protein_coding |
| OMIM | 602442 |
| Entrez | 6453 |
Gene structure
Transcript identifiers
Ensembl transcripts: 31 — 15 protein_coding, 7 retained_intron, 6 protein_coding_CDS_not_defined, 3 nonsense_mediated_decay
ENST00000379960, ENST00000381283, ENST00000381284, ENST00000381291, ENST00000381318, ENST00000399338, ENST00000399349, ENST00000399352, ENST00000399353, ENST00000399355, ENST00000399367, ENST00000415023, ENST00000419241, ENST00000420666, ENST00000428240, ENST00000437126, ENST00000440794, ENST00000444491, ENST00000451686, ENST00000456489, ENST00000462212, ENST00000465143, ENST00000470742, ENST00000472548, ENST00000474132, ENST00000475422, ENST00000479424, ENST00000487427, ENST00000488166, ENST00000489261, ENST00000495656
RefSeq mRNA: 7 — MANE Select: NM_003024
NM_001001132, NM_001331008, NM_001331009, NM_001331010, NM_001331011, NM_001331012, NM_003024
CCDS: CCDS33545, CCDS33546, CCDS82661, CCDS82663, CCDS82664, CCDS82665, CCDS82666
Canonical transcript exons
ENST00000381318 — 40 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001844175 | 33888152 | 33899861 |
| ENSE00001867436 | 33642501 | 33642713 |
| ENSE00002286409 | 33818267 | 33818472 |
| ENSE00002289133 | 33772061 | 33772323 |
| ENSE00002294975 | 33799808 | 33799929 |
| ENSE00002306218 | 33751810 | 33751906 |
| ENSE00002528364 | 33802430 | 33802444 |
| ENSE00003481950 | 33856736 | 33856857 |
| ENSE00003487819 | 33829624 | 33829745 |
| ENSE00003507202 | 33882243 | 33882455 |
| ENSE00003516373 | 33858686 | 33858792 |
| ENSE00003520853 | 33875354 | 33875521 |
| ENSE00003529805 | 33867233 | 33867331 |
| ENSE00003535724 | 33885439 | 33885522 |
| ENSE00003543412 | 33885041 | 33885123 |
| ENSE00003550586 | 33819241 | 33819323 |
| ENSE00003554783 | 33718797 | 33718856 |
| ENSE00003559784 | 33823487 | 33823653 |
| ENSE00003560708 | 33765875 | 33766012 |
| ENSE00003582731 | 33767713 | 33767828 |
| ENSE00003590878 | 33883550 | 33883671 |
| ENSE00003604372 | 33826818 | 33826863 |
| ENSE00003615598 | 33755297 | 33755397 |
| ENSE00003626830 | 33836441 | 33836632 |
| ENSE00003629591 | 33813913 | 33814072 |
| ENSE00003636097 | 33721178 | 33721270 |
| ENSE00003644095 | 33865151 | 33865334 |
| ENSE00003660532 | 33761923 | 33761986 |
| ENSE00003673780 | 33886287 | 33886460 |
| ENSE00003694267 | 33834307 | 33834424 |
| ENSE00003711579 | 33750143 | 33750322 |
| ENSE00003716255 | 33781994 | 33782133 |
| ENSE00003716800 | 33794341 | 33794468 |
| ENSE00003722466 | 33797379 | 33797608 |
| ENSE00003727180 | 33722588 | 33722651 |
| ENSE00003740685 | 33774968 | 33775108 |
| ENSE00003746393 | 33810975 | 33811222 |
| ENSE00003748649 | 33781461 | 33781548 |
| ENSE00003754038 | 33774729 | 33774878 |
| ENSE00003789821 | 33735044 | 33735204 |
Expression profiles
Bgee: expression breadth ubiquitous, 293 present calls, max score 97.13.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 17.7475 / max 358.8404, expressed in 1719 samples.
FANTOM5 promoters (9 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 188885 | 10.0425 | 1574 |
| 188884 | 4.5564 | 1389 |
| 188883 | 1.3389 | 770 |
| 188894 | 0.9140 | 358 |
| 188893 | 0.4010 | 188 |
| 188887 | 0.1841 | 59 |
| 188888 | 0.1810 | 18 |
| 188889 | 0.0681 | 16 |
| 188886 | 0.0616 | 14 |
Top tissues by expression
295 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| sural nerve | UBERON:0015488 | 97.13 | gold quality |
| tibia | UBERON:0000979 | 96.78 | gold quality |
| cortical plate | UBERON:0005343 | 96.36 | gold quality |
| saphenous vein | UBERON:0007318 | 96.34 | gold quality |
| parietal pleura | UBERON:0002400 | 95.70 | gold quality |
| cranial nerve II | UBERON:0000941 | 95.63 | gold quality |
| adipose tissue | UBERON:0001013 | 95.32 | gold quality |
| pericardium | UBERON:0002407 | 95.31 | gold quality |
| connective tissue | UBERON:0002384 | 94.94 | gold quality |
| subcutaneous adipose tissue | UBERON:0002190 | 94.93 | gold quality |
| adipose tissue of abdominal region | UBERON:0007808 | 94.48 | gold quality |
| ganglionic eminence | UBERON:0004023 | 94.44 | gold quality |
| peritoneum | UBERON:0002358 | 94.31 | gold quality |
| omental fat pad | UBERON:0010414 | 94.31 | gold quality |
| pleura | UBERON:0000977 | 94.29 | gold quality |
| dorsal motor nucleus of vagus nerve | UBERON:0002870 | 94.22 | gold quality |
| embryo | UBERON:0000922 | 93.94 | gold quality |
| vena cava | UBERON:0004087 | 93.40 | gold quality |
| mammary gland | UBERON:0001911 | 93.29 | gold quality |
| thoracic mammary gland | UBERON:0005200 | 93.29 | gold quality |
| endothelial cell | CL:0000115 | 93.19 | gold quality |
| ventricular zone | UBERON:0003053 | 93.18 | gold quality |
| stromal cell of endometrium | CL:0002255 | 92.94 | gold quality |
| mammary duct | UBERON:0001765 | 92.66 | gold quality |
| visceral pleura | UBERON:0002401 | 92.66 | gold quality |
| calcaneal tendon | UBERON:0003701 | 92.57 | gold quality |
| tibial nerve | UBERON:0001323 | 92.56 | gold quality |
| synovial joint | UBERON:0002217 | 92.53 | gold quality |
| myometrium | UBERON:0001296 | 92.48 | gold quality |
| Brodmann (1909) area 23 | UBERON:0013554 | 92.37 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 2.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-MTAB-6678 | yes | 10.67 |
| E-ANND-3 | no | 0.00 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): EWSR1, FLI1, GTF2I, SNAI1, TP53
miRNA regulators (miRDB)
56 targeting ITSN1, 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-4747-5P | 100.00 | 67.90 | 2681 |
| HSA-MIR-5196-5P | 100.00 | 67.98 | 2761 |
| HSA-MIR-2110 | 99.96 | 66.68 | 1930 |
| HSA-MIR-4725-3P | 99.96 | 69.53 | 2520 |
| HSA-MIR-6780B-5P | 99.96 | 69.60 | 2562 |
| HSA-MIR-6721-5P | 99.93 | 68.92 | 2981 |
| HSA-MIR-515-5P | 99.92 | 69.82 | 2343 |
| HSA-MIR-519E-5P | 99.92 | 69.62 | 2358 |
| HSA-MIR-3119 | 99.92 | 71.34 | 2390 |
| HSA-MIR-3529-3P | 99.90 | 73.55 | 3045 |
| HSA-MIR-4271 | 99.88 | 68.32 | 2244 |
| HSA-MIR-6857-5P | 99.87 | 65.32 | 985 |
| HSA-MIR-4739 | 99.84 | 65.25 | 1832 |
| HSA-MIR-3180-5P | 99.82 | 69.12 | 2422 |
| HSA-MIR-498-5P | 99.76 | 69.64 | 1807 |
| HSA-MIR-494-3P | 99.70 | 71.45 | 2795 |
| HSA-MIR-7154-5P | 99.69 | 70.52 | 1900 |
| HSA-MIR-4530 | 99.69 | 66.47 | 1509 |
| HSA-MIR-5004-5P | 99.68 | 66.63 | 1294 |
| HSA-MIR-29B-2-5P | 99.67 | 68.98 | 1726 |
| HSA-MIR-519D-5P | 99.41 | 69.30 | 2057 |
| HSA-MIR-4777-5P | 99.33 | 67.53 | 1148 |
| HSA-MIR-4721 | 99.26 | 66.05 | 818 |
| HSA-MIR-4291 | 99.20 | 68.88 | 2969 |
| HSA-MIR-942-3P | 98.81 | 69.04 | 876 |
| HSA-MIR-876-3P | 98.76 | 68.23 | 945 |
| HSA-MIR-423-5P | 98.69 | 67.48 | 1522 |
| HSA-MIR-3691-5P | 98.62 | 65.88 | 552 |
| HSA-MIR-8060 | 98.61 | 66.93 | 1187 |
| HSA-MIR-3184-5P | 98.56 | 67.13 | 1491 |
Functional genomics
ClinGen dosage: haploinsufficiency 1 (little evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 36)
- intersectin interaction with dynamin was important in regulating the fission and internalization of caveolae (PMID:12960435)
- review of roles of ITSN1 and DSCR1 in Down syndrome, Alzheimer’s disease, endocytosis and vesicle trafficking (PMID:16442855)
- Results extend the current role of intersectin-1L in endocytosis to a function in exocytosis and support the idea that intersectin-1L is an adaptor that coordinates exo-endocytotic membrane trafficking in secretory cells. (PMID:16874303)
- ITSN forms a complex with Cbl in vivo mediated by the Src homology (SH) 3 domains binding to the Pro-rich COOH terminus of Cbl. This interaction stimulates the ubiquitylation and degradation of the activated EGFR. (PMID:16914641)
- findings demonstrate a novel role of ITSN-1s as a negative regulator of the mitochondrial pathway-dependent apoptosis secondary to activation of the Erk1/2 survival signaling pathway (PMID:17405881)
- These results demonstrate that alternative splicing leads to the formation of two pools of ITSN1 with potentially different properties in neurons, affecting ITSN1 function as adaptor protein. (PMID:18539136)
- These data provide a molecular link between SHIP2 and ITSN1 which are involved in receptor endocytosis regulation. (PMID:18692052)
- Intersectin 1 forms a complex with adaptor protein (SH3KBP1 protein), implicated in downregulation of receptor tyrosine kinases. (PMID:19166927)
- The higher exchange activity of ITSN1L towards the GDP-bound conformation of Cdc42 could represent an evolutionary adaptation of this GEF that ensures nucleotide exchange towards the formation of the signalling-active GTP-bound form of Cdc42. (PMID:19356586)
- The identification of fifteen novel transcriptional isoforms of the human ITSN1 gene with full-length coding sequences , is reported. (PMID:19777371)
- Downregulation of intersectin-1s induces apoptosis of brain glioblastoma cells. (PMID:20493827)
- microexons provide a mechanism for the control of tissue-specific interactions of ITSN1 and Src with their partners. (PMID:20659428)
- Studied the inhibitory mechanism of ITSN1L, & id’d a novel short amino acid motif which mediates autoinhibition. Found this motif is located in the SH3 DH linker region, and show that W1221 acts as key residue in establishing inhibitory interaction. (PMID:20842712)
- These findings expand the role of ITSN1 as a scaffolding molecule bringing together components of endocytic complexes. (PMID:20946875)
- ITSN-1s, via its SH3A domain has the unique ability to regulate dyn2 assembly-disassembly and function during endocytosis (PMID:21129155)
- ITSN1 has two isoforms: ITSN1-long and ITSN1-short. siRNA-mediated down regulation of ITSN1-short inhibits migration and invasion of glioma cells. (PMID:21503949)
- This novel mammalian ITSN1 isoform possesses a significantly altered domain structure and performs specific protein-protein interactions. (PMID:21712076)
- study reveals a link between overexpression of specific ITSN1 isoforms and behavioral phenotypes (PMID:21876463)
- Silencing ITSN1 significantly inhibits the anchorage independent growth of tumor cells in vitro. (PMID:22266851)
- the neuron-specific isoform of the stable tubule-only polypeptide (STOP) interacts with SH3A domain of ITSN1. (PMID:22750298)
- ITSN1 and ITSN2 bind similar proline-rich ligands but are differentially recognized by SH2 domain-containing proteins. (PMID:23936226)
- Our observations suggest that ITSN1 is an important general regulator of Cdc42-, Nck- and N-WASP-dependent actin polymerisation (PMID:24284073)
- Abnormal expression of the intersectin1-L protein in epileptic brain tissue may play an important role in epilepsy, especially refractory epilepsy. (PMID:25783631)
- Study suggests critical roles of ITSN1-S in malignant glioma proliferation, indicating a potential usage of ITSN1-S in the therapeutic intervention as a novel molecular target (PMID:25832561)
- study reports that vaccinia virus A36 contains three NPF motifs that interact with the Eps15 homology (EH) domains in intersectin-1 and Eps15 to promote the release of virus from infected cells and their subsequent spread (PMID:27670116)
- These findings provide the basis for further functional investigations of the ITSN/CR16 complex that may play an important role in actin remodeling and cellular invasion. (PMID:28161632)
- Silencing ITSN1 in neuroblastoma cells led to decreased tumor growth in an orthotopic mouse model. Orthotopic animal models can provide insight into the role of ITSN1 pathways in neuroblastoma tumorigenesis. (PMID:28787396)
- Here, we discover that intersectin-s binds DENND2B, a guanine nucleotide exchange factor for the exocytic GTPase Rab13, and this interaction promotes recycling of ligand-free EGFR to the cell surface. Our study thus reveals a novel mechanism controlling the fate of internalized EGFR with important implications for cancer. (PMID:29030480)
- Different modes of ubiquitination regulated by AIP4 have opposite effects on ITSN1 isoform stability. (PMID:29851086)
- WIP enhances the interaction of N-WASP with ITSN1 and promotes ITSN1/beta-actin association. (PMID:29958948)
- the long isoform of intersectin-1 (ITSN-1), a guanine nucleotide exchange factor for Cdc42, is identified as a novel Golgi component and an interaction partner of GCC88 responsible for mediating the actin-dependent dispersal of the Golgi ribbon. (PMID:30540523)
- two isoforms of intersectin1 ITSN1-S and ITSN1-L produced by alternative splicing exerted opposite functions in glioma development. (PMID:31160551)
- ITSN1 regulates SAM68 solubility through SH3 domain interactions with SAM68 proline-rich motifs. (PMID:32780150)
- Endocytic protein intersectin1-S shuttles into nucleus to suppress the DNA replication in breast cancer. (PMID:34625530)
- ITSN1: a novel candidate gene involved in autosomal dominant neurodevelopmental disorder spectrum. (PMID:34707297)
- The alternative splicing of intersectin 1 regulated by PTBP1 promotes human glioma progression. (PMID:36171198)
Cross-species orthologs
7 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | itsn1 | ENSDARG00000000086 |
| mus_musculus | Itsn1 | ENSMUSG00000022957 |
| rattus_norvegicus | Itsn1 | ENSRNOG00000002001 |
| drosophila_melanogaster | Dap160 | FBGN0023388 |
| drosophila_melanogaster | Eps-15 | FBGN0035060 |
| caenorhabditis_elegans | WBGENE00001224 | |
| caenorhabditis_elegans | WBGENE00006405 |
Paralogs (10): EHD3 (ENSG00000013016), EHD2 (ENSG00000024422), EPS15 (ENSG00000085832), EHD4 (ENSG00000103966), EHD1 (ENSG00000110047), EPS15L1 (ENSG00000127527), REPS1 (ENSG00000135597), REPS2 (ENSG00000169891), SRL (ENSG00000185739), ITSN2 (ENSG00000198399)
Protein
Protein identifiers
Intersectin-1 — Q15811 (reviewed: Q15811)
Alternative names: SH3 domain-containing protein 1A, SH3P17
All UniProt accessions (12): Q15811, C9J1A4, C9JQZ7, C9JXS9, F8W7U0, H0Y3G5, H0Y523, H0Y6W3, H0Y7J7, H7C3F1, H7C429, Q6J334
UniProt curated annotations — full annotation on UniProt →
Function. Adapter protein that provides a link between the endocytic membrane traffic and the actin assembly machinery. Acts as a guanine nucleotide exchange factor (GEF) for CDC42, and thereby stimulates actin nucleation mediated by WASL and the ARP2/3 complex. Plays a role in the assembly and maturation of clathrin-coated vesicles. Recruits FCHSD2 to clathrin-coated pits. Involved in endocytosis of activated EGFR, and probably also other growth factor receptors. Involved in endocytosis of integrin beta-1 (ITGB1) and transferrin receptor (TFR); internalization of ITGB1 as DAB2-dependent cargo but not TFR may involve association with DAB2. Promotes ubiquitination and subsequent degradation of EGFR, and thereby contributes to the down-regulation of EGFR-dependent signaling pathways. In chromaffin cells, required for normal exocytosis of catecholamines. Required for rapid replenishment of release-ready synaptic vesicles at presynaptic active zones. Inhibits ARHGAP31 activity toward RAC1. Plays a role in synaptic vesicle endocytosis in brain neurons.
Subunit / interactions. Interacts (via DH domain) with CDC42. Interacts (via SH3 domain 1) with WASL. Interacts with dynamin, SNAP25 and SNAP23. Interacts with clathrin-associated proteins and other components of the endocytic machinery, such as SPIN90, EPS15, EPN1, EPN2, STON2, FCHO1, FCHO2 and DAB2. Interacts (via SH3 domains) with REPS1 and SGIP1. Interacts with ARHGAP31. Interacts with ADAM15. Interacts with PRRT2. Interacts (via SH3 domain 4) with FCHSD2 (via SH3 domain 2). Interacts (via SH3 domain 1) with DENND2B. Interacts (via SH3 domains) with CBL. Isoform 2: Interacts with CBL and DNM1. Isoform 2: Interacts with LMNA. Isoform 2: Interacts with importin subunit KPNA1; this is likely to mediate its import into the nucleus. Interacts with DNM2. (Microbial infection) Interacts with vaccinia virus protein A36.
Subcellular location. Endomembrane system. Synapse. Synaptosome. Cell projection. Lamellipodium. Cell membrane. Membrane. Clathrin-coated pit. Recycling endosome. Endosome. Cytoplasmic vesicle Cytoplasm. Nucleus envelope Endomembrane system.
Tissue specificity. Isoform 1 is expressed almost exclusively in the brain. Isoform 2 is detected in brain, spleen, lung, liver, heart, skeletal muscle and kidney. Isoform 5 is primarily expressed in brain, spleen, lung and kidney (at protein level). Isoform 1 and isoform 2 are detected in brain. Isoform 2 is ubiquitous in adult and fetal tissues with high expression in skeletal muscle, heart, spleen, ovary, testis and all fetal tissues tested and low expression in thymus, blood, lung, liver and pancreas. Isoform 1 is expressed almost exclusively in the brain, in all brain regions. Not expressed in the spinal cord.
Domain organisation. SH3-3, SH3-4 and SH3-5, but not SH3-1 and SH3-2 domains, bind to dynamin. SH3-1 and SH3-4 bind to ARHGAP31. The KLERQ domain binds to SNAP-25 and SNAP-23. In an autoinhibited form the SH3 domain 5 may bind intramolecularly to the DH domain, thus blocking the CDC42-binding site.
Miscellaneous. Contains a premature stop codon, potentially subjected to NMD. Contains a premature stop codon, potentially subjected to NMD.
Isoforms (13)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q15811-1 | 1, Long, ITSN-l | yes |
| Q15811-2 | 2, Short, ITSN-s | |
| Q15811-3 | 3, Short 2, SH3P17 | |
| Q15811-4 | 4 | |
| Q15811-5 | 5, ITSN1-22a | |
| Q15811-6 | 6, Long form variant 4, Short form variant 11 | |
| Q15811-7 | 7, Short form variant 5 | |
| Q15811-8 | 8, Long form variant 2 | |
| Q15811-9 | 9, Long form variant 3 | |
| Q15811-10 | 10, Short form variant 2 | |
| Q15811-11 | 11, Short form variant 3 | |
| Q15811-12 | 12, Short form variant 10 | |
| Q15811-13 | 13, Short form variant 14 |
RefSeq proteins (7): NP_001001132, NP_001317937, NP_001317938, NP_001317939, NP_001317940, NP_001317941, NP_003015* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000008 | C2_dom | Domain |
| IPR000219 | DH_dom | Domain |
| IPR000261 | EH_dom | Domain |
| IPR001331 | GDS_CDC24_CS | Conserved_site |
| IPR001452 | SH3_domain | Domain |
| IPR001849 | PH_domain | Domain |
| IPR002048 | EF_hand_dom | Domain |
| IPR011992 | EF-hand-dom_pair | Homologous_superfamily |
| IPR011993 | PH-like_dom_sf | Homologous_superfamily |
| IPR018247 | EF_Hand_1_Ca_BS | Binding_site |
| IPR032140 | INTAP | Domain |
| IPR035892 | C2_domain_sf | Homologous_superfamily |
| IPR035899 | DBL_dom_sf | Homologous_superfamily |
| IPR036028 | SH3-like_dom_sf | Homologous_superfamily |
| IPR051480 | Endocytic_GEF_Adapter | Family |
Pfam: PF00018, PF00168, PF00621, PF07653, PF12763, PF14604, PF16617, PF16652
UniProt features (137 total): strand 37, helix 28, binding site 13, modified residue 13, domain 12, splice variant 11, sequence conflict 7, region of interest 5, mutagenesis site 4, turn 2, chain 1, coiled-coil region 1, short sequence motif 1, compositionally biased region 1, sequence variant 1
Structure
Experimental structures (PDB)
11 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 3FIA | X-RAY DIFFRACTION | 1.45 |
| 6H5T | X-RAY DIFFRACTION | 1.69 |
| 4IIM | X-RAY DIFFRACTION | 1.8 |
| 1KI1 | X-RAY DIFFRACTION | 2.3 |
| 5HZI | X-RAY DIFFRACTION | 2.6 |
| 5HZJ | X-RAY DIFFRACTION | 2.6 |
| 3QBV | X-RAY DIFFRACTION | 2.65 |
| 5HZK | X-RAY DIFFRACTION | 3.3 |
| 6GBU | X-RAY DIFFRACTION | 3.44 |
| 2KGR | SOLUTION NMR | |
| 2KHN | SOLUTION NMR |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q15811-F1 | 73.28 | 0.35 |
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 (13): 66; 68; 70; 72; 77; 267; 269; 271; 273; 278; 1667; 1670 …
Post-translational modifications (13): 203, 318, 687, 897, 901, 902, 904, 978, 986, 995, 1137, 1144, 1645
Mutagenesis-validated functional residues (4):
| Position | Phenotype |
|---|---|
| 1078 | abolishes interaction with fchsd2. |
| 1119 | abolishes interaction with fchsd2. |
| 1369 | decreases specificity for cdc42; when associated with i-1376. |
| 1376 | decreases specificity for cdc42; when associated with l-1369. |
Function
Pathways and Gene Ontology
Reactome pathways
23 pathways
| ID | Pathway |
|---|---|
| R-HSA-193648 | NRAGE signals death through JNK |
| R-HSA-3928662 | EPHB-mediated forward signaling |
| R-HSA-416482 | G alpha (12/13) signalling events |
| R-HSA-8856825 | Cargo recognition for clathrin-mediated endocytosis |
| R-HSA-8856828 | Clathrin-mediated endocytosis |
| R-HSA-9013148 | CDC42 GTPase cycle |
| R-HSA-9013406 | RHOQ GTPase cycle |
| R-HSA-9013408 | RHOG GTPase cycle |
| R-HSA-1266738 | Developmental Biology |
| R-HSA-162582 | Signal Transduction |
| R-HSA-193704 | p75 NTR receptor-mediated signalling |
| R-HSA-194315 | Signaling by Rho GTPases |
| R-HSA-199991 | Membrane Trafficking |
| R-HSA-204998 | Cell death signalling via NRAGE, NRIF and NADE |
| R-HSA-2682334 | EPH-Ephrin signaling |
| R-HSA-372790 | Signaling by GPCR |
| R-HSA-388396 | GPCR downstream signalling |
| R-HSA-422475 | Axon guidance |
| R-HSA-5653656 | Vesicle-mediated transport |
| R-HSA-73887 | Death Receptor Signaling |
| R-HSA-9012999 | RHO GTPase cycle |
| R-HSA-9675108 | Nervous system development |
| R-HSA-9716542 | Signaling by Rho GTPases, Miro GTPases and RHOBTB3 |
MSigDB gene sets: 407 (showing top):
GOBP_DENDRITE_DEVELOPMENT, RRAGTTGT_UNKNOWN, GOBP_POSITIVE_REGULATION_OF_ENDOCYTOSIS, KAAB_HEART_ATRIUM_VS_VENTRICLE_UP, GRAESSMANN_APOPTOSIS_BY_SERUM_DEPRIVATION_UP, GOBP_DENDRITIC_SPINE_DEVELOPMENT, GOBP_REGULATION_OF_SMALL_GTPASE_MEDIATED_SIGNAL_TRANSDUCTION, GOBP_REGULATION_OF_HORMONE_LEVELS, REACTOME_NRAGE_SIGNALS_DEATH_THROUGH_JNK, GOBP_HORMONE_TRANSPORT, GOBP_NEUROGENESIS, GOBP_VESICLE_MEDIATED_TRANSPORT, REACTOME_MEMBRANE_TRAFFICKING, MODULE_16, ACTGCAG_MIR173P
GO Biological Process (15): exocytosis (GO:0006887), intracellular protein localization (GO:0008104), protein transport (GO:0015031), endosomal transport (GO:0016197), intracellular signal transduction (GO:0035556), regulation of small GTPase mediated signal transduction (GO:0051056), positive regulation of growth hormone secretion (GO:0060124), positive regulation of dendritic spine development (GO:0060999), regulation of postsynapse organization (GO:0099175), clathrin-dependent synaptic vesicle endocytosis (GO:0150007), regulation of modification of postsynaptic actin cytoskeleton (GO:1905274), positive regulation of caveolin-mediated endocytosis (GO:2001288), endocytosis (GO:0006897), regulation of cell communication (GO:0010646), regulation of signaling (GO:0023051)
GO Molecular Function (7): guanyl-nucleotide exchange factor activity (GO:0005085), calcium ion binding (GO:0005509), protein-macromolecule adaptor activity (GO:0030674), molecular adaptor activity (GO:0060090), proline-rich region binding (GO:0070064), protein binding (GO:0005515), metal ion binding (GO:0046872)
GO Cellular Component (23): nuclear envelope (GO:0005635), cytoplasm (GO:0005737), cytosol (GO:0005829), plasma membrane (GO:0005886), clathrin-coated pit (GO:0005905), lamellipodium (GO:0030027), presynaptic membrane (GO:0042734), neuronal cell body (GO:0043025), dendritic spine (GO:0043197), recycling endosome (GO:0055037), apical dendrite (GO:0097440), intracellular vesicle (GO:0097708), postsynaptic endocytic zone (GO:0098843), postsynaptic actin cytoskeleton (GO:0098871), glutamatergic synapse (GO:0098978), nucleus (GO:0005634), endosome (GO:0005768), endomembrane system (GO:0012505), membrane (GO:0016020), cytoplasmic vesicle (GO:0031410), cell projection (GO:0042995), neuron projection (GO:0043005), synapse (GO:0045202)
Reactome top-level categories
Rollup of top-14 pathways:
| Category | Pathways |
|---|---|
| RHO GTPase cycle | 3 |
| Signal Transduction | 2 |
| Cell death signalling via NRAGE, NRIF and NADE | 1 |
| EPH-Ephrin signaling | 1 |
| GPCR downstream signalling | 1 |
| Clathrin-mediated endocytosis | 1 |
| Membrane Trafficking | 1 |
| Death Receptor Signaling | 1 |
| Signaling by Rho GTPases, Miro GTPases and RHOBTB3 | 1 |
| Vesicle-mediated transport | 1 |
| p75 NTR receptor-mediated signalling | 1 |
| Axon guidance | 1 |
| Signaling by GPCR | 1 |
| Nervous system development | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 5 |
| vesicle-mediated transport | 3 |
| intracellular anatomical structure | 3 |
| endomembrane system | 3 |
| postsynapse | 3 |
| intracellular transport | 2 |
| protein binding | 2 |
| binding | 2 |
| cytoplasm | 2 |
| membrane | 2 |
| dendrite | 2 |
| intracellular membrane-bounded organelle | 2 |
| secretion by cell | 1 |
| vesicle fusion to plasma membrane | 1 |
| macromolecule localization | 1 |
| transport | 1 |
| intracellular protein localization | 1 |
| establishment of protein localization | 1 |
| signal transduction | 1 |
| small GTPase-mediated signal transduction | 1 |
| regulation of intracellular signal transduction | 1 |
| growth hormone secretion | 1 |
| regulation of growth hormone secretion | 1 |
| positive regulation of peptide hormone secretion | 1 |
| positive regulation of developmental process | 1 |
| dendritic spine development | 1 |
| regulation of dendritic spine development | 1 |
| regulation of synapse organization | 1 |
| postsynapse organization | 1 |
| synaptic vesicle recycling via endosome | 1 |
| synaptic vesicle endocytosis | 1 |
| clathrin-dependent endocytosis | 1 |
| modification of postsynaptic actin cytoskeleton | 1 |
| regulation of modification of postsynaptic structure | 1 |
| positive regulation of endocytosis | 1 |
| caveolin-mediated endocytosis | 1 |
| regulation of caveolin-mediated endocytosis | 1 |
| vesicle budding from membrane | 1 |
| membrane invagination | 1 |
| import into cell | 1 |
Protein interactions and networks
STRING
2614 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| ITSN1 | FCHO1 | O14526 | 998 |
| ITSN1 | WASL | O00401 | 993 |
| ITSN1 | CDC42 | P21181 | 993 |
| ITSN1 | EPS15 | P42566 | 983 |
| ITSN1 | EPN2 | O95208 | 979 |
| ITSN1 | STON2 | Q8WXE9 | 978 |
| ITSN1 | EPN3 | Q9H201 | 968 |
| ITSN1 | FCHO2 | Q0JRZ9 | 960 |
| ITSN1 | SYNJ1 | O43426 | 929 |
| ITSN1 | DNM1 | Q05193 | 928 |
| ITSN1 | EPHB2 | P29323 | 912 |
| ITSN1 | AMPH | P49418 | 900 |
| ITSN1 | GCC1 | Q96CN9 | 891 |
| ITSN1 | BIN1 | O00499 | 890 |
| ITSN1 | RABIF | P47224 | 861 |
IntAct
203 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| CBL | EGFR | psi-mi:“MI:0403”(colocalization) | 0.960 |
| DNM2 | ITSN1 | psi-mi:“MI:0915”(physical association) | 0.780 |
| DNM2 | ITSN1 | psi-mi:“MI:0407”(direct interaction) | 0.780 |
| AP2B1 | ITSN1 | psi-mi:“MI:0407”(direct interaction) | 0.760 |
| DNM2 | DNM1 | psi-mi:“MI:0914”(association) | 0.740 |
| ITSN1 | CBL | psi-mi:“MI:0915”(physical association) | 0.730 |
| CBL | ITSN1 | psi-mi:“MI:0915”(physical association) | 0.730 |
| CBL | ITSN1 | psi-mi:“MI:0403”(colocalization) | 0.730 |
| ITSN1 | CBL | psi-mi:“MI:0403”(colocalization) | 0.730 |
| ITSN1 | SOS1 | psi-mi:“MI:0914”(association) | 0.720 |
| SOS1 | ITSN1 | psi-mi:“MI:0915”(physical association) | 0.720 |
| ITSN1 | SOS1 | psi-mi:“MI:0915”(physical association) | 0.720 |
| CFTR | ESYT2 | psi-mi:“MI:2364”(proximity) | 0.710 |
| ITSN1 | WASL | psi-mi:“MI:0915”(physical association) | 0.700 |
| WASL | ITSN1 | psi-mi:“MI:0407”(direct interaction) | 0.700 |
| WASL | ITSN1 | psi-mi:“MI:0915”(physical association) | 0.700 |
| WASL | ITSN1 | psi-mi:“MI:0403”(colocalization) | 0.700 |
BioGRID (371): ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), EPS15 (Co-fractionation), EPS15L1 (Co-fractionation), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), ITSN1 (FRET), ITSN1 (Affinity Capture-Western), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS), ITSN1 (Affinity Capture-MS)
ESM2 similar proteins: A6QP06, A7KAX9, F1LRS8, F1QIC4, G5EBZ8, O18195, O42287, O43432, O43491, O60237, O75167, O76337, O82171, O94519, O97902, P11171, P11434, P34416, P41110, P41993, P48820, Q09459, Q15811, Q1AAU6, Q501J7, Q52KW0, Q5HYK7, Q5M775, Q5RAU1, Q5RDE1, Q69ZW3, Q6NZJ6, Q801E2, Q8BG95, Q8IZ21, Q8R550, Q91X43, Q925Q9, Q96B97, Q9HCH5
Diamond homologs: A0A8I3PDQ1, A1CEK6, A1DFN5, A2QW93, A4FU49, A4RF61, A7A261, O13736, O35177, O35179, O35964, O42287, O43281, P29355, P34109, P38753, P43603, P56945, Q08012, Q0CJU8, Q0P5B1, Q0U6X7, Q14511, Q15811, Q16584, Q1E878, Q2GT05, Q4R729, Q4WHP5, Q557J6, Q5BBL4, Q5I1X5, Q61140, Q62419, Q62420, Q63767, Q64355, Q66HA1, Q6BNP6, Q6C2N2
SIGNOR signaling
5 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| ITSN1 | up-regulates | CDC42 | binding |
| GCC1 | “up-regulates activity” | ITSN1 | relocalization |
| ITSN1 | “up-regulates activity” | CDC42 | “guanine nucleotide exchange factor” |
| “AP-2 complex” | “up-regulates activity” | ITSN1 | binding |
| ITSN1 | “up-regulates quantity by stabilization” | “AP-2/clathrin vescicle” | binding |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 169 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 |
|---|---|---|---|
| Nef-mediates down modulation of cell surface receptors by recruiting them to clathrin adapters | 6 | 32.0× | 1e-06 |
| The role of Nef in HIV-1 replication and disease pathogenesis | 6 | 32.0× | 1e-06 |
| Nephrin family interactions | 6 | 24.0× | 6e-06 |
| LDL clearance | 5 | 22.9× | 7e-05 |
| RHOU GTPase cycle | 9 | 21.1× | 5e-08 |
| Plasma lipoprotein clearance | 5 | 20.0× | 1e-04 |
| RHOV GTPase cycle | 8 | 19.2× | 6e-07 |
| EGFR downregulation | 6 | 17.4× | 4e-05 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| synaptic vesicle endocytosis | 10 | 28.8× | 1e-09 |
| negative regulation of epidermal growth factor receptor signaling pathway | 5 | 25.5× | 3e-04 |
| clathrin-dependent endocytosis | 6 | 23.2× | 6e-05 |
| endocytosis | 13 | 8.2× | 3e-06 |
| protein-containing complex assembly | 8 | 6.1× | 7e-03 |
| intracellular protein transport | 10 | 4.3× | 1e-02 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
468 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 17 |
| Likely pathogenic | 6 |
| Uncertain significance | 297 |
| Likely benign | 58 |
| Benign | 53 |
Top pathogenic / likely-pathogenic (23)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1708060 | NM_003024.3(ITSN1):c.473del (p.Leu158fs) | Pathogenic |
| 2423448 | NC_000021.8:g.(?35183279)(35191627_?)del | Pathogenic |
| 2599271 | NM_003024.3(ITSN1):c.2895C>G (p.Tyr965Ter) | Pathogenic |
| 3340324 | NM_003024.3(ITSN1):c.1102C>T (p.Arg368Ter) | Pathogenic |
| 3342924 | NM_003024.3(ITSN1):c.1660C>T (p.Gln554Ter) | Pathogenic |
| 3360025 | NM_003024.3(ITSN1):c.1333C>T (p.Arg445Ter) | Pathogenic |
| 3376127 | NM_003024.3(ITSN1):c.4248_4249del (p.Cys1417fs) | Pathogenic |
| 3773994 | NM_003024.3(ITSN1):c.3038dup (p.Tyr1013Ter) | Pathogenic |
| 3861990 | NM_003024.3(ITSN1):c.1271_1272del (p.Glu424fs) | Pathogenic |
| 4040563 | NM_003024.3(ITSN1):c.2070_2071del (p.Lys691fs) | Pathogenic |
| 4072679 | NM_003024.3(ITSN1):c.1651C>T (p.Gln551Ter) | Pathogenic |
| 4075619 | NM_003024.3(ITSN1):c.1363C>T (p.Gln455Ter) | Pathogenic |
| 4086505 | NM_003024.3(ITSN1):c.3113G>A (p.Trp1038Ter) | Pathogenic |
| 4088969 | NM_003024.3(ITSN1):c.973del (p.Ser324_Val325insTer) | Pathogenic |
| 4530574 | NM_003024.3(ITSN1):c.795_798del (p.Ser266fs) | Pathogenic |
| 4726145 | NM_003024.3(ITSN1):c.2400T>G (p.Tyr800Ter) | Pathogenic |
| 4730448 | NM_003024.3(ITSN1):c.3712C>T (p.Arg1238Ter) | Pathogenic |
| 1707525 | NM_003024.3(ITSN1):c.3017-2A>G | Likely pathogenic |
| 1960283 | NM_003024.3(ITSN1):c.725-1G>A | Likely pathogenic |
| 225087 | NM_003024.3(ITSN1):c.2227G>T (p.Val743Leu) | Likely pathogenic |
| 2429074 | NM_003024.3(ITSN1):c.2772G>A (p.Trp924Ter) | Likely pathogenic |
| 2576126 | NM_003024.3(ITSN1):c.3937_3941dup (p.Met1314fs) | Likely pathogenic |
| 3777173 | NM_003024.3(ITSN1):c.934C>T (p.Arg312Ter) | Likely pathogenic |
SpliceAI
10127 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 21:33649198:T:TA | donor_gain | 1.0000 |
| 21:33718791:TTACA:T | acceptor_loss | 1.0000 |
| 21:33718792:TACA:T | acceptor_loss | 1.0000 |
| 21:33718794:CA:C | acceptor_loss | 1.0000 |
| 21:33718795:A:AG | acceptor_gain | 1.0000 |
| 21:33718796:G:GG | acceptor_gain | 1.0000 |
| 21:33718796:GGC:G | acceptor_gain | 1.0000 |
| 21:33718854:GTG:G | donor_gain | 1.0000 |
| 21:33718854:GTGGT:G | donor_loss | 1.0000 |
| 21:33718855:TGG:T | donor_loss | 1.0000 |
| 21:33718856:GGT:G | donor_loss | 1.0000 |
| 21:33718857:GT:G | donor_loss | 1.0000 |
| 21:33718858:TAAGT:T | donor_loss | 1.0000 |
| 21:33720206:G:GG | donor_gain | 1.0000 |
| 21:33721280:G:GG | donor_gain | 1.0000 |
| 21:33735041:CAG:C | acceptor_loss | 1.0000 |
| 21:33735043:G:A | acceptor_loss | 1.0000 |
| 21:33735043:GGGC:G | acceptor_gain | 1.0000 |
| 21:33735205:G:GA | donor_loss | 1.0000 |
| 21:33735205:G:GG | donor_gain | 1.0000 |
| 21:33735206:T:G | donor_loss | 1.0000 |
| 21:33735458:CAGT:C | donor_gain | 1.0000 |
| 21:33751209:GAGCA:G | donor_gain | 1.0000 |
| 21:33751809:GCA:G | acceptor_gain | 1.0000 |
| 21:33755295:A:AG | acceptor_gain | 1.0000 |
| 21:33755296:G:GT | acceptor_gain | 1.0000 |
| 21:33755296:GT:G | acceptor_gain | 1.0000 |
| 21:33755296:GTGT:G | acceptor_gain | 1.0000 |
| 21:33767702:C:CA | acceptor_gain | 1.0000 |
| 21:33767705:A:AG | acceptor_gain | 1.0000 |
AlphaMissense
11292 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 21:33735109:T:C | L84P | 1.000 |
| 21:33755316:T:A | W215R | 1.000 |
| 21:33755316:T:C | W215R | 1.000 |
| 21:33755318:G:C | W215C | 1.000 |
| 21:33755318:G:T | W215C | 1.000 |
| 21:33755323:T:A | V217D | 1.000 |
| 21:33755346:T:G | Y225D | 1.000 |
| 21:33755358:T:C | F229L | 1.000 |
| 21:33755359:T:C | F229S | 1.000 |
| 21:33755360:C:A | F229L | 1.000 |
| 21:33755360:C:G | F229L | 1.000 |
| 21:33755392:T:C | L240S | 1.000 |
| 21:33761944:T:A | L249H | 1.000 |
| 21:33761944:T:C | L249P | 1.000 |
| 21:33761974:T:C | L259P | 1.000 |
| 21:33761983:T:A | I262K | 1.000 |
| 21:33761983:T:G | I262R | 1.000 |
| 21:33761985:T:A | W263R | 1.000 |
| 21:33761985:T:C | W263R | 1.000 |
| 21:33765875:G:C | W263C | 1.000 |
| 21:33765875:G:T | W263C | 1.000 |
| 21:33765907:T:A | L274H | 1.000 |
| 21:33765907:T:C | L274P | 1.000 |
| 21:33765921:T:C | F279L | 1.000 |
| 21:33765922:T:C | F279S | 1.000 |
| 21:33765923:T:A | F279L | 1.000 |
| 21:33765923:T:G | F279L | 1.000 |
| 21:33765931:C:A | A282E | 1.000 |
| 21:33765940:T:C | L285P | 1.000 |
| 21:33772067:T:G | F350C | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000006064 (21:33854874 T>G), RS1000036313 (21:33748204 G>A,C), RS1000036662 (21:33725764 C>T), RS1000044022 (21:33896360 C>T), RS1000049574 (21:33829253 G>A), RS1000054339 (21:33658405 G>A), RS1000062374 (21:33731741 C>A,T), RS1000074996 (21:33716938 A>C,G), RS1000094440 (21:33678584 T>G), RS1000099421 (21:33884757 T>G), RS1000106307 (21:33658645 T>C), RS1000137830 (21:33742020 G>A), RS1000138012 (21:33809445 C>T), RS1000152238 (21:33804962 G>A), RS1000158096 (21:33700057 T>A)
Disease associations
OMIM: gene MIM:602442 | disease phenotypes: MIM:189800, MIM:209850, MIM:156200, MIM:189960
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| nephrotic syndrome | Strong | Autosomal recessive |
| neurodevelopmental disorder | Strong | Autosomal dominant |
Mondo (6): nephrotic syndrome (MONDO:0005377), preeclampsia (MONDO:0005081), neurodevelopmental disorder (MONDO:0700092), autism (MONDO:0005260), intellectual disability, autosomal dominant 1 (MONDO:0007974), esophageal atresia/tracheoesophageal fistula (MONDO:0008586)
Orphanet (3): Preeclampsia (Orphanet:275555), 2q23.1 microdeletion syndrome (Orphanet:228402), Esophageal atresia (Orphanet:1199)
HPO phenotypes
1 total (1 of 1 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000717 | Autism |
GWAS associations
16 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST002598_2 | Educational attainment | 3.000000e-06 |
| GCST003995_25 | Tonsillectomy | 4.000000e-09 |
| GCST004602_238 | Mean corpuscular volume | 1.000000e-26 |
| GCST004621_175 | Red cell distribution width | 7.000000e-26 |
| GCST004630_31 | Mean corpuscular hemoglobin | 8.000000e-29 |
| GCST005014_121 | Tonsillectomy | 4.000000e-09 |
| GCST005171_16 | QT interval | 7.000000e-07 |
| GCST008524_14 | Bitter non-alcoholic beverage consumption | 5.000000e-07 |
| GCST008839_332 | Height | 2.000000e-08 |
| GCST90002390_680 | Mean corpuscular hemoglobin | 8.000000e-78 |
| GCST90002391_173 | Mean corpuscular hemoglobin concentration | 2.000000e-09 |
| GCST90002392_121 | Mean corpuscular volume | 4.000000e-74 |
| GCST90002396_73 | Mean reticulocyte volume | 4.000000e-09 |
| GCST90002397_295 | Mean spheric corpuscular volume | 2.000000e-26 |
| GCST90002403_536 | Red blood cell count | 6.000000e-19 |
| GCST90002404_584 | Red cell distribution width | 5.000000e-66 |
EFO canonical traits (9, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004784 | self reported educational attainment |
| EFO:0007924 | tonsillectomy risk measurement |
| EFO:0009188 | Red cell distribution width |
| EFO:0004527 | mean corpuscular hemoglobin |
| EFO:0004682 | QT interval |
| EFO:0010093 | bitter non-alcoholic beverage consumption measurement |
| EFO:0004528 | mean corpuscular hemoglobin concentration |
| EFO:0010701 | mean reticulocyte volume |
| EFO:0004305 | erythrocyte count |
MeSH disease descriptors (6)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D001321 | Autistic Disorder | F03.625.164.113.500 |
| D009404 | Nephrotic Syndrome | C12.050.351.968.419.630.643; C12.200.777.419.630.643; C12.950.419.630.643 |
| D065886 | Neurodevelopmental Disorders | F03.625 |
| D011225 | Pre-Eclampsia | C12.050.703.395.249 |
| C531835 | Esophageal atresia with or without tracheoesophageal fistula (supp.) | |
| C566947 | Mental Retardation, Autosomal Dominant 1 (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (2): CHEMBL4523302 (SINGLE PROTEIN), CHEMBL4888458 (PROTEIN-PROTEIN INTERACTION)
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
47 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects cotreatment, increases expression, affects expression, decreases expression | 7 |
| Benzo(a)pyrene | affects methylation, decreases expression, decreases methylation | 3 |
| Aflatoxin B1 | decreases expression, increases methylation | 3 |
| cobaltous chloride | decreases expression, increases expression | 2 |
| Cadmium Chloride | increases abundance, increases expression | 2 |
| arsenite | affects binding, decreases reaction | 1 |
| sodium arsenite | affects cotreatment, decreases expression, increases abundance | 1 |
| butyraldehyde | decreases expression | 1 |
| 3,4,5,3’,4’-pentachlorobiphenyl | decreases expression | 1 |
| manganese chloride | affects cotreatment, decreases expression, increases abundance | 1 |
| benzo(e)pyrene | increases methylation | 1 |
| potassium chromate(VI) | affects cotreatment, decreases expression | 1 |
| 4-hydroxy-2-nonenal | decreases expression | 1 |
| aflatoxin B2 | increases methylation | 1 |
| beta-methylcholine | affects expression | 1 |
| epigallocatechin gallate | affects cotreatment, decreases expression | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| perfluorooctane sulfonic acid | decreases expression | 1 |
| K 7174 | increases expression | 1 |
| clothianidin | decreases expression | 1 |
| bisphenol B | increases expression | 1 |
| abrine | increases expression | 1 |
| 2,2’,4,4’-tetrabromodiphenyl ether | increases expression | 1 |
| bisphenol S | increases expression | 1 |
| bisphenol AF | increases expression | 1 |
| Sunitinib | decreases expression | 1 |
| Arsenic | affects cotreatment, decreases expression, increases abundance | 1 |
| Vehicle Emissions | increases abundance, increases expression | 1 |
| Cadmium | increases abundance, increases expression | 1 |
| Caffeine | affects phosphorylation | 1 |
ChEMBL screening assays
5 unique, capped per target: 5 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL4419732 | Binding | Inhibition of GST-tagged human intersectin-1 (1227 to 1571 residues) RhoGEF-catalyzed guanine nucleotide-exchange reaction of human full length Cdc42 (1 to 191 residues) by measuring inhibition of the GDP dissociation from Cdc42 at 0.76 to | Small-molecule inhibitors targeting g-protein-coupled rho guanine nucleotide exchange factors |
Clinical trials (associated diseases)
496 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00308321 | PHASE4 | UNKNOWN | Long Term Tapering or Standard Steroids for Nephrotic Syndrome |
| NCT01021540 | PHASE4 | COMPLETED | Prospective Study Evaluating the Effect of Repository Corticotropin in the Treatment of Various Nephrotic Syndromes |
| NCT01028287 | PHASE4 | COMPLETED | Adrenocorticotropic Hormone (ACTH) Treatment of Nephrotic Range Proteinuria in Diabetic Nephropathy (NRDN) |
| NCT01162005 | PHASE4 | COMPLETED | Therapeutic Effect of Tacrolimus on Primary Nephrotic Syndrome in Children |
| NCT01895894 | PHASE4 | COMPLETED | Mycophenolate Mofetil in Pediatric Steroid Dependent Nephrotic Syndrome |
| NCT02238418 | PHASE4 | COMPLETED | Efficacy of Usual Vitamin D Supplementation and Its Impact on Children and Adolescents Calciuria. |
| NCT02382575 | PHASE4 | UNKNOWN | Efficacy and Safety of Rituximab to That of Calcineurin Inhibitors in Children With Steroid Resistant Nephrotic Syndrome |
| NCT02427880 | PHASE4 | COMPLETED | Role of Acetazolamide and Hydrochlorothiazide Followed by Furosemide in Treating Nephrotic Edema |
| NCT03210688 | PHASE4 | COMPLETED | Active Vitamin D And Reduced Dose Prednisolone for Treatment in Minimal Change Nephropathy |
| NCT03347357 | PHASE4 | COMPLETED | Pharmacokinetics of Tacrolimus in Children |
| NCT05696977 | PHASE4 | UNKNOWN | Effect of Obesity on Cyclosporine Blood Trough Level in Nephrotic Syndrome Patients |
| NCT05966818 | PHASE4 | UNKNOWN | Effect of Dapagliflozin in Non-Diabetic Patients With Nephrotic Syndrome. |
| NCT06026787 | PHASE4 | COMPLETED | Clinical Value of Adding Dapagliflozin in Patients With Nephrotic Syndrome |
| NCT04586348 | PHASE4 | UNKNOWN | Prenatal Iodine Supplementation and Early Childhood Neurodevelopment |
| NCT04873115 | PHASE4 | UNKNOWN | Double-blind, Placebo-controlled, Randomized Clinical Trial Comparing the Efficacy and Safety of Sialanar Plus orAl rehabiLitation Against Placebo Plus Oral Rehabilitation for chIldren and Adolescents With seVere Sialorrhoea and Neurodisabilties, |
| NCT00117546 | PHASE4 | UNKNOWN | Cardiovascular and Autonomic Reactivity in Women With a History of Pre-eclampsia |
| NCT00567957 | PHASE4 | UNKNOWN | Remifentanil for General Anesthesia in Preeclamptics |
| NCT01030627 | PHASE4 | COMPLETED | Treatment Approaches to Preeclampsia |
| NCT01352234 | PHASE4 | COMPLETED | Comparison of Doses of Acetylsalicylic Acid in Women With Previous History of Preeclampsia |
| NCT01361425 | PHASE4 | UNKNOWN | Anti-Hypertensive Treatment In Stable Pregnant Women With Severe Pre-Eclampsia (Metildopape) |
| NCT01729468 | PHASE4 | COMPLETED | Prevention of Pre-eclampsia and SGA by Low-Dose Aspirin in Nulliparous Women With Abnormal First-trimester Uterine Artery Dopplers |
| NCT01761916 | PHASE4 | COMPLETED | Clonidine Versus Captopril for Treatment of Postpartum Very High Blood Pressure |
| NCT01912677 | PHASE4 | COMPLETED | Oral Antihypertensive Regimens for Management of Hypertension in Pregnancy |
| NCT02025426 | PHASE4 | TERMINATED | Phenylephrine Versus Ephedrine in Pre-eclampsia |
| NCT02091401 | PHASE4 | COMPLETED | A Trial Comparing Treatment With the Springfusor Infusion Pump to the IV Magnesium Sulfate Regimen |
| NCT02163655 | PHASE4 | COMPLETED | Diuretics for Postpartum High Blood Pressure in Preeclampsia |
| NCT02338687 | PHASE4 | COMPLETED | Low Dose Calcium to Prevent Preeclampsia |
| NCT02396030 | PHASE4 | TERMINATED | Different Schemes of Magnesium Sulfate for Preeclampsia |
| NCT02531490 | PHASE4 | UNKNOWN | Early Vascular Adjustments During Hypertensive Pregnancy |
| NCT02699827 | PHASE4 | COMPLETED | Adding MgSO4 to Epidural Levobupivacaine in CS for Patients With Preeclampsia |
| NCT02835339 | PHASE4 | COMPLETED | Magnesium Sulfate in Obese Preeclamptics |
| NCT02891174 | PHASE4 | COMPLETED | The Effect of Ibuprofen on Post-partum Blood Pressure in Women With Hypertensive Disorders of Pregnancy |
| NCT02911701 | PHASE4 | COMPLETED | Effect of Acetaminophen on Postpartum Blood Pressure Control in Preeclampsia With Severe Features |
| NCT03171480 | PHASE4 | COMPLETED | Use of Nitrous Oxide Donor for Labor Induction in Women With PreEclampsia |
| NCT03233880 | PHASE4 | UNKNOWN | Impact of Antichlamydial Treatment on the Rate of Preeclampsia |
| NCT03237000 | PHASE4 | UNKNOWN | Effect of Administering Intravenous Magnesium Sulfate on Fetal Cardiotocography and Neonatal Outcome in Preeclamptic Patients |
| NCT03506724 | PHASE4 | COMPLETED | Response to Anti-hypertensives in Pregnant and Postpartum Patients |
| NCT03674606 | PHASE4 | COMPLETED | Trial of Early Screening Test for Pre-eclampsia and Growth Restriction |
| NCT03735433 | PHASE4 | TERMINATED | The Effect of Two Aspirin Dosing Strategies for Obese Women at High Risk for Preeclampsia |
| NCT03824119 | PHASE4 | UNKNOWN | Postpartum NSAIDS and Maternal Hypertension |
Related Atlas pages
- Associated diseases: nephrotic syndrome, neurodevelopmental disorder
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): esophageal atresia/tracheoesophageal fistula, intellectual disability, autosomal dominant 1, nephrotic syndrome, neurodevelopmental disorder, preeclampsia