ABHD17C
gene geneOn this page
Summary
ABHD17C (abhydrolase domain containing 17C, depalmitoylase, HGNC:26925) is a protein-coding gene on chromosome 15q25.1, encoding Alpha/beta hydrolase domain-containing protein 17C (Q6PCB6). Hydrolyzes fatty acids from S-acylated cysteine residues in proteins.
Enables palmitoyl-(protein) hydrolase activity. Involved in protein depalmitoylation. Predicted to be located in dendritic spine; postsynaptic density membrane; and recycling endosome membrane. Predicted to be active in endosome membrane; glutamatergic synapse; and plasma membrane.
Source: NCBI Gene 58489 — RefSeq curated summary.
At a glance
- GWAS associations: 20
- Clinical variants (ClinVar): 39 total — 7 pathogenic, 1 likely-pathogenic
- MANE Select transcript:
NM_021214
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:26925 |
| Approved symbol | ABHD17C |
| Name | abhydrolase domain containing 17C, depalmitoylase |
| Location | 15q25.1 |
| Locus type | gene with protein product |
| Status | Approved |
| Ensembl gene | ENSG00000136379 |
| Ensembl biotype | protein_coding |
| OMIM | 617944 |
| Entrez | 58489 |
Gene structure
Transcript identifiers
Ensembl transcripts: 6 — 4 protein_coding, 2 protein_coding_CDS_not_defined
ENST00000258884, ENST00000558464, ENST00000559506, ENST00000560126, ENST00000560609, ENST00000933904
RefSeq mRNA: 1 — MANE Select: NM_021214
NM_021214
CCDS: CCDS45323
Canonical transcript exons
ENST00000258884 — 3 exons
| Exon | Start | End |
|---|---|---|
| ENSE00002538451 | 80754151 | 80755621 |
| ENSE00002556300 | 80695310 | 80696019 |
| ENSE00003638441 | 80749513 | 80749692 |
Expression profiles
Bgee: expression breadth ubiquitous, 214 present calls, max score 98.81.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 14.3513 / max 170.5649, expressed in 1660 samples.
FANTOM5 promoters (2 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 148020 | 12.2028 | 1619 |
| 148019 | 2.1485 | 1021 |
Top tissues by expression
250 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| ileal mucosa | UBERON:0000331 | 98.81 | gold quality |
| colonic mucosa | UBERON:0000317 | 96.65 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 96.56 | gold quality |
| lower esophagus mucosa | UBERON:0035834 | 95.98 | gold quality |
| rectum | UBERON:0001052 | 95.79 | gold quality |
| mucosa of transverse colon | UBERON:0004991 | 95.54 | gold quality |
| esophagus squamous epithelium | UBERON:0006920 | 93.68 | gold quality |
| esophagus mucosa | UBERON:0002469 | 92.53 | gold quality |
| ventricular zone | UBERON:0003053 | 91.42 | gold quality |
| cortical plate | UBERON:0005343 | 90.50 | gold quality |
| olfactory segment of nasal mucosa | UBERON:0005386 | 90.29 | gold quality |
| oral cavity | UBERON:0000167 | 89.71 | gold quality |
| ganglionic eminence | UBERON:0004023 | 89.37 | gold quality |
| nasal cavity epithelium | UBERON:0005384 | 89.02 | gold quality |
| transverse colon | UBERON:0001157 | 88.70 | gold quality |
| duodenum | UBERON:0002114 | 88.16 | gold quality |
| jejunal mucosa | UBERON:0000399 | 87.43 | gold quality |
| minor salivary gland | UBERON:0001830 | 87.04 | gold quality |
| right lung | UBERON:0002167 | 87.04 | gold quality |
| upper lobe of lung | UBERON:0008948 | 86.93 | gold quality |
| upper lobe of left lung | UBERON:0008952 | 86.93 | gold quality |
| nasal cavity mucosa | UBERON:0001826 | 86.80 | gold quality |
| mouth mucosa | UBERON:0003729 | 86.27 | gold quality |
| stromal cell of endometrium | CL:0002255 | 85.94 | gold quality |
| lower lobe of lung | UBERON:0008949 | 85.52 | gold quality |
| caudate nucleus | UBERON:0001873 | 85.34 | gold quality |
| pancreatic ductal cell | CL:0002079 | 85.21 | silver quality |
| saliva-secreting gland | UBERON:0001044 | 85.13 | gold quality |
| gingiva | UBERON:0001828 | 85.13 | gold quality |
| skin of abdomen | UBERON:0001416 | 84.94 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 10.67 |
| E-MTAB-6075 | no | 339.96 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
136 targeting ABHD17C, 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-513A-5P | 100.00 | 69.77 | 2465 |
| HSA-MIR-3163 | 100.00 | 77.23 | 8605 |
| HSA-MIR-3134 | 100.00 | 66.43 | 777 |
| HSA-MIR-340-5P | 100.00 | 72.50 | 4437 |
| HSA-MIR-5692A | 100.00 | 74.40 | 6850 |
| HSA-MIR-3613-3P | 100.00 | 76.36 | 7965 |
| HSA-MIR-4500 | 99.99 | 72.72 | 2367 |
| HSA-MIR-4282 | 99.99 | 75.36 | 6408 |
| HSA-MIR-27A-3P | 99.98 | 72.13 | 2955 |
| HSA-MIR-27B-3P | 99.98 | 72.13 | 2955 |
| HSA-MIR-9985 | 99.98 | 72.11 | 2939 |
| HSA-MIR-548P | 99.98 | 72.25 | 3784 |
| HSA-MIR-19A-3P | 99.98 | 75.33 | 2762 |
| HSA-MIR-19B-3P | 99.98 | 75.44 | 2754 |
| HSA-MIR-98-5P | 99.98 | 72.33 | 1787 |
| HSA-LET-7A-5P | 99.98 | 72.29 | 1790 |
| HSA-LET-7B-5P | 99.98 | 72.31 | 1790 |
| HSA-LET-7C-5P | 99.98 | 72.29 | 1790 |
| HSA-LET-7E-5P | 99.98 | 72.29 | 1790 |
| HSA-LET-7F-5P | 99.98 | 72.56 | 1784 |
| HSA-LET-7G-5P | 99.98 | 72.37 | 1784 |
| HSA-LET-7I-5P | 99.98 | 72.37 | 1788 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-3148 | 99.97 | 75.06 | 6478 |
| HSA-MIR-3658 | 99.96 | 73.87 | 4379 |
| HSA-MIR-5688 | 99.96 | 73.23 | 4504 |
| HSA-LET-7D-5P | 99.96 | 71.76 | 1632 |
| HSA-MIR-4458 | 99.96 | 71.64 | 1650 |
| HSA-MIR-495-3P | 99.96 | 72.81 | 4197 |
| HSA-MIR-548AA | 99.96 | 70.64 | 3753 |
Cross-species orthologs
5 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | ENSDARG00000114931 | |
| mus_musculus | Abhd17c | ENSMUSG00000038459 |
| rattus_norvegicus | Abhd17c | ENSRNOG00000012683 |
| caenorhabditis_elegans | WBGENE00008497 | |
| caenorhabditis_elegans | WBGENE00008498 |
Paralogs (7): ABHD12 (ENSG00000100997), ABHD17B (ENSG00000107362), ABHD17A (ENSG00000129968), ABHD12B (ENSG00000131969), ABHD13 (ENSG00000139826), ABHD16B (ENSG00000183260), ABHD16A (ENSG00000204427)
Protein
Protein identifiers
Alpha/beta hydrolase domain-containing protein 17C — Q6PCB6 (reviewed: Q6PCB6)
All UniProt accessions (2): Q6PCB6, H0YN98
UniProt curated annotations — full annotation on UniProt →
Function. Hydrolyzes fatty acids from S-acylated cysteine residues in proteins. Has depalmitoylating activity towards NRAS and DLG4/PSD95.
Subcellular location. Recycling endosome membrane. Cell projection. Dendritic spine. Postsynaptic density membrane.
Post-translational modifications. Palmitoylated on cysteine residues located in a cysteine cluster at the N-terminus which promotes membrane localization. Palmitoylation is required for post-synaptic localization and for depalmitoylating activity towards DLG4/PSD95.
Activity regulation. Inhibited by palmostatin-B.
Similarity. Belongs to the AB hydrolase superfamily. ABHD17 family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q6PCB6-1 | 1 | yes |
| Q6PCB6-2 | 2 |
RefSeq proteins (1): NP_067037* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR022742 | ABHD17C-like | Domain |
| IPR029058 | AB_hydrolase_fold | Homologous_superfamily |
Pfam: PF12146
Catalyzed reactions (Rhea), 1 shown:
- S-hexadecanoyl-L-cysteinyl-[protein] + H2O = L-cysteinyl-[protein] + hexadecanoate + H(+) (RHEA:19233)
UniProt features (7 total): active site 3, chain 1, region of interest 1, compositionally biased region 1, splice variant 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q6PCB6-F1 | 85.94 | 0.75 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Catalytic / active sites (3): 211 (charge relay system); 276 (charge relay system); 305 (charge relay system)
Function
Pathways and Gene Ontology
Reactome pathways
5 pathways
| ID | Pathway |
|---|---|
| R-HSA-9648002 | RAS processing |
| R-HSA-162582 | Signal Transduction |
| R-HSA-5673001 | RAF/MAP kinase cascade |
| R-HSA-5683057 | MAPK family signaling cascades |
| R-HSA-5684996 | MAPK1/MAPK3 signaling |
MSigDB gene sets: 190 (showing top):
GSE45365_NK_CELL_VS_BCELL_UP, GOBP_PROTEIN_LOCALIZATION_TO_CYTOSKELETON, MODULE_255, GOBP_LIPOPROTEIN_METABOLIC_PROCESS, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GOBP_MACROMOLECULE_DEACYLATION, GOBP_POSITIVE_REGULATION_OF_PROTEIN_LOCALIZATION, GOBP_MACROMOLECULE_CATABOLIC_PROCESS, MODULE_317, GOBP_NEGATIVE_REGULATION_OF_PROTEIN_LOCALIZATION, GOBP_CELL_JUNCTION_ORGANIZATION, SCHAEFFER_PROSTATE_DEVELOPMENT_6HR_DN, CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_5, GOBP_REGULATION_OF_SYNAPSE_STRUCTURE_OR_ACTIVITY, NAKAMURA_TUMOR_ZONE_PERIPHERAL_VS_CENTRAL_DN
GO Biological Process (4): protein depalmitoylation (GO:0002084), regulation of postsynapse organization (GO:0099175), negative regulation of protein localization to microtubule (GO:1902817), positive regulation of protein localization to endosome (GO:1905668)
GO Molecular Function (3): palmitoyl-(protein) hydrolase activity (GO:0008474), protein binding (GO:0005515), hydrolase activity (GO:0016787)
GO Cellular Component (12): plasma membrane (GO:0005886), endosome membrane (GO:0010008), dendritic spine (GO:0043197), recycling endosome membrane (GO:0055038), postsynaptic density membrane (GO:0098839), glutamatergic synapse (GO:0098978), endosome (GO:0005768), postsynaptic density (GO:0014069), membrane (GO:0016020), cell projection (GO:0042995), synapse (GO:0045202), postsynaptic membrane (GO:0045211)
Reactome top-level categories
Rollup of top-4 pathways:
| Category | Pathways |
|---|---|
| RAF/MAP kinase cascade | 1 |
| MAPK1/MAPK3 signaling | 1 |
| Signal Transduction | 1 |
| MAPK family signaling cascades | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| postsynapse | 2 |
| cellular anatomical structure | 2 |
| protein deacylation | 1 |
| lipoprotein catabolic process | 1 |
| macromolecule depalmitoylation | 1 |
| regulation of synapse organization | 1 |
| postsynapse organization | 1 |
| protein localization to microtubule | 1 |
| regulation of protein localization to microtubule | 1 |
| negative regulation of protein localization | 1 |
| protein localization to endosome | 1 |
| positive regulation of protein localization | 1 |
| regulation of protein localization to endosome | 1 |
| thiolester hydrolase activity | 1 |
| palmitoyl hydrolase activity | 1 |
| catalytic activity, acting on a protein | 1 |
| binding | 1 |
| catalytic activity | 1 |
| membrane | 1 |
| cell periphery | 1 |
| endosome | 1 |
| cytoplasmic vesicle membrane | 1 |
| bounding membrane of organelle | 1 |
| dendrite | 1 |
| neuron spine | 1 |
| endosome membrane | 1 |
| recycling endosome | 1 |
| postsynaptic density | 1 |
| postsynaptic membrane | 1 |
| postsynaptic specialization membrane | 1 |
| synapse | 1 |
| endomembrane system | 1 |
| cytoplasmic vesicle | 1 |
| asymmetric synapse | 1 |
| postsynaptic specialization | 1 |
| cell junction | 1 |
| synaptic membrane | 1 |
Protein interactions and networks
STRING
560 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| ABHD17C | LYPLAL1 | Q5VWZ2 | 545 |
| ABHD17C | NPIPB6 | E9PJ23 | 505 |
| ABHD17C | LYPLA1 | O75608 | 501 |
| ABHD17C | PPT1 | P50897 | 491 |
| ABHD17C | LYPLA2 | O95372 | 475 |
| ABHD17C | ABHD10 | Q9NUJ1 | 464 |
| ABHD17C | PPT2 | Q9UMR5 | 439 |
| ABHD17C | ABHD11 | Q8NFV4 | 425 |
| ABHD17C | ZDHHC7 | Q9NXF8 | 417 |
| ABHD17C | ABHD16A | O95870 | 408 |
| ABHD17C | ABHD6 | Q9BV23 | 408 |
| ABHD17C | RBBP9 | O75884 | 387 |
| ABHD17C | PPME1 | Q9Y570 | 379 |
| ABHD17C | ZDHHC5 | Q9C0B5 | 372 |
| ABHD17C | ZKSCAN5 | Q9Y2L8 | 370 |
IntAct
72 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| ABHD17C | A2M | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | APBB2 | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | DNM2 | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | TOR1A | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | psi-mi:“MI:0915”(physical association) | 0.560 | |
| ABHD17C | MECP2 | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | PHYH | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | PMP22 | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | SMN1 | psi-mi:“MI:0915”(physical association) | 0.560 |
| ABHD17C | OPTN | psi-mi:“MI:0915”(physical association) | 0.560 |
| PEX26 | ABHD17C | psi-mi:“MI:0915”(physical association) | 0.560 |
| SNCA | ABHD17C | psi-mi:“MI:0915”(physical association) | 0.560 |
| HTT | ABHD17C | psi-mi:“MI:0915”(physical association) | 0.560 |
| ATXN3 | ABHD17C | psi-mi:“MI:0915”(physical association) | 0.560 |
BioGRID (16): ABHD17C (Affinity Capture-RNA), ABHD17C (Two-hybrid), ABHD17C (Affinity Capture-Luminescence), ABHD17C (Two-hybrid), ABHD17C (Positive Genetic), ABHD17C (Affinity Capture-MS), ABHD17C (Affinity Capture-MS), ABHD17C (Affinity Capture-MS), ABHD17C (Affinity Capture-MS), USP35 (Affinity Capture-Western), ABHD17C (Affinity Capture-Western), ABHD17C (Proximity Label-MS), ABHD17C (Proximity Label-MS), ABHD17C (Proximity Label-MS), ABHD17C (Proximity Label-MS)
ESM2 similar proteins: A0A2R8QFQ6, A0A2R8RWN9, A0JN27, A5PKD9, B5DFK7, D3Z7P3, G3MWR8, O94925, P13264, Q01098, Q08DW9, Q14722, Q28528, Q28D01, Q2HJ19, Q2YDM2, Q4R766, Q5JUK3, Q5NVE6, Q5RIC0, Q5SRY7, Q5TA45, Q5XIJ5, Q5ZIN0, Q5ZJ01, Q5ZJX1, Q67FW5, Q6DCC5, Q6DD70, Q6DEY3, Q6GL10, Q6PCB6, Q6ZPR4, Q7RTP6, Q7ZVZ7, Q8BTG7, Q8C6G8, Q8CJ19, Q8N2K0, Q8TF64
Diamond homologs: A0A2S3R7M0, A5PKD9, B5DFK7, Q2HJ19, Q5UQK4, Q5VST6, Q5XIJ5, Q5ZJ01, Q5ZJX1, Q6AY17, Q6DCC5, Q6DD70, Q6DEY3, Q6GL10, Q6IRP4, Q6PCB6, Q7M759, Q7ZVZ7, Q8RXP6, Q8VCV1, Q96GS6, Q99JW1, Q9KS12, P77538, P9WLC6, P9WLC7, Q21221, Q8XA81, O95870, P41879, Q1JPD2, Q4R8P0, Q5R6S0, Q5XIL6, Q6MG55, Q80YU0, Q9H3Z7, Q9Z1Q2, O94305, Q01609
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
39 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 7 |
| Likely pathogenic | 1 |
| Uncertain significance | 28 |
| Likely benign | 0 |
| Benign | 0 |
Top pathogenic / likely-pathogenic (8)
| Variant ID | HGVS | Classification |
|---|---|---|
| 154952 | GRCh38/hg38 15q23-26.3(chr15:72154949-101920998)x3 | Pathogenic |
| 1809424 | GRCh37/hg19 15q24.3-26.3(chr15:77512817-102035027)x3 | Pathogenic |
| 2580298 | GRCh37/hg19 15q24.1-26.3(chr15:75165490-102520892)x3 | Pathogenic |
| 395044 | GRCh37/hg19 15q25.1-25.2(chr15:80703867-83955596)x1 | Pathogenic |
| 4279122 | GRCh37/hg19 15q24.1-25.2(chr15:74979036-81960184)x1 | Pathogenic |
| 564223 | GRCh37/hg19 15q25.1-25.3(chr15:79023343-87158823)x1,2 | Pathogenic |
| 688687 | GRCh37/hg19 15q25.1-25.2(chr15:80728654-84107646)x1 | Pathogenic |
| 4279410 | GRCh37/hg19 15q24.1-26.3(chr15:73506509-102429112)x3 | Likely pathogenic |
SpliceAI
850 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 15:80750740:C:G | donor_gain | 1.0000 |
| 15:80752066:ACTT:A | acceptor_gain | 1.0000 |
| 15:80752066:ACTTG:A | acceptor_gain | 1.0000 |
| 15:80754149:A:AG | acceptor_gain | 1.0000 |
| 15:80754150:G:GG | acceptor_gain | 1.0000 |
| 15:80754150:GC:G | acceptor_gain | 1.0000 |
| 15:80754150:GCAT:G | acceptor_gain | 1.0000 |
| 15:80754150:GCATT:G | acceptor_gain | 1.0000 |
| 15:80696006:GCGC:G | donor_gain | 0.9900 |
| 15:80696018:CGGT:C | donor_loss | 0.9900 |
| 15:80696020:G:GG | donor_gain | 0.9900 |
| 15:80696020:GTGAG:G | donor_loss | 0.9900 |
| 15:80696021:T:A | donor_loss | 0.9900 |
| 15:80749508:TCCA:T | acceptor_loss | 0.9900 |
| 15:80749510:CA:C | acceptor_loss | 0.9900 |
| 15:80749511:A:T | acceptor_loss | 0.9900 |
| 15:80749512:G:GA | acceptor_loss | 0.9900 |
| 15:80752066:A:AG | acceptor_gain | 0.9900 |
| 15:80752171:T:G | donor_gain | 0.9900 |
| 15:80752748:A:T | donor_gain | 0.9900 |
| 15:80752806:G:GT | donor_gain | 0.9900 |
| 15:80752923:A:T | donor_gain | 0.9900 |
| 15:80754147:GCA:G | acceptor_loss | 0.9900 |
| 15:80754148:CAGC:C | acceptor_loss | 0.9900 |
| 15:80754149:AGCA:A | acceptor_loss | 0.9900 |
| 15:80754150:GCA:G | acceptor_gain | 0.9900 |
| 15:80749690:CAG:C | donor_loss | 0.9800 |
| 15:80749691:AGGT:A | donor_loss | 0.9800 |
| 15:80749692:GG:G | donor_loss | 0.9800 |
| 15:80749693:GTA:G | donor_loss | 0.9800 |
AlphaMissense
2135 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 15:80695532:T:C | F35L | 1.000 |
| 15:80695533:T:C | F35S | 1.000 |
| 15:80695534:C:A | F35L | 1.000 |
| 15:80695534:C:G | F35L | 1.000 |
| 15:80695718:T:A | W97R | 1.000 |
| 15:80695718:T:C | W97R | 1.000 |
| 15:80695836:T:A | L136H | 1.000 |
| 15:80695836:T:C | L136P | 1.000 |
| 15:80695838:T:C | F137L | 1.000 |
| 15:80695839:T:C | F137S | 1.000 |
| 15:80695840:C:A | F137L | 1.000 |
| 15:80695840:C:G | F137L | 1.000 |
| 15:80695844:C:A | H139N | 1.000 |
| 15:80695844:C:G | H139D | 1.000 |
| 15:80695844:C:T | H139Y | 1.000 |
| 15:80695847:G:C | G140R | 1.000 |
| 15:80695847:G:T | G140C | 1.000 |
| 15:80695848:G:A | G140D | 1.000 |
| 15:80695848:G:T | G140V | 1.000 |
| 15:80695850:A:C | N141H | 1.000 |
| 15:80695850:A:G | N141D | 1.000 |
| 15:80695851:A:T | N141I | 1.000 |
| 15:80695852:C:A | N141K | 1.000 |
| 15:80695852:C:G | N141K | 1.000 |
| 15:80695853:G:C | A142P | 1.000 |
| 15:80695854:C:A | A142D | 1.000 |
| 15:80695859:G:C | D144H | 1.000 |
| 15:80695859:G:T | D144Y | 1.000 |
| 15:80695860:A:C | D144A | 1.000 |
| 15:80695860:A:G | D144G | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000018984 (15:80712527 A>G,T), RS1000034123 (15:80709965 A>C), RS1000160901 (15:80712684 C>T), RS1000296313 (15:80712509 G>A), RS1000297012 (15:80727725 G>A), RS1000303708 (15:80751132 C>T), RS1000321979 (15:80729500 A>G), RS1000353465 (15:80701604 G>A,C), RS1000411434 (15:80738438 T>C), RS1000537641 (15:80701126 T>C), RS1000553915 (15:80728653 G>A,C), RS1000568304 (15:80734456 A>G), RS1000615891 (15:80745574 TC>T), RS1000634457 (15:80751308 C>T), RS1000675609 (15:80707543 T>A,C)
Disease associations
OMIM: gene MIM:617944 | disease phenotypes: MIM:276700
GenCC curated gene-disease
Mondo (1): tyrosinemia type I (MONDO:0010161)
Orphanet (1): Tyrosinemia type 1 (Orphanet:882)
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
20 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST001491_10 | Immune response to smallpox vaccine (IL-6) | 9.000000e-07 |
| GCST004279_14 | Systolic blood pressure | 5.000000e-12 |
| GCST004776_3 | Systolic blood pressure | 5.000000e-07 |
| GCST004776_74 | Systolic blood pressure | 5.000000e-14 |
| GCST005829_20 | Hand grip strength | 1.000000e-11 |
| GCST005830_25 | Hand grip strength | 1.000000e-13 |
| GCST007094_44 | Diastolic blood pressure | 9.000000e-09 |
| GCST007095_100 | Systolic blood pressure | 3.000000e-07 |
| GCST007095_99 | Systolic blood pressure | 2.000000e-07 |
| GCST007096_117 | Pulse pressure | 3.000000e-08 |
| GCST007098_101 | Diastolic blood pressure | 5.000000e-06 |
| GCST007099_161 | Systolic blood pressure | 1.000000e-12 |
| GCST007267_148 | Systolic blood pressure | 3.000000e-18 |
| GCST007269_285 | Pulse pressure | 2.000000e-10 |
| GCST007928_57 | Medication use (diuretics) | 4.000000e-12 |
| GCST007929_19 | Medication use (calcium channel blockers) | 6.000000e-16 |
| GCST007930_164 | Medication use (agents acting on the renin-angiotensin system) | 1.000000e-09 |
| GCST010988_209 | Adult body size | 1.000000e-13 |
| GCST90000025_226 | Appendicular lean mass | 3.000000e-14 |
| GCST90002407_597 | White blood cell count | 1.000000e-10 |
EFO canonical traits (9, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004645 | response to vaccine |
| EFO:0006335 | systolic blood pressure |
| EFO:0006941 | grip strength measurement |
| EFO:0006336 | diastolic blood pressure |
| EFO:0005763 | pulse pressure measurement |
| EFO:0009928 | Diuretic use measurement |
| EFO:0009930 | Calcium channel blocker use measurement |
| EFO:0009931 | Agents acting on the renin-angiotensin system use measurement |
| EFO:0004980 | appendicular lean mass |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
25 total (human), top 25 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects expression, increases expression | 2 |
| 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide | affects expression, decreases expression | 2 |
| aristolochic acid I | decreases expression | 1 |
| afimoxifene | decreases expression, decreases reaction | 1 |
| sodium arsenite | decreases expression | 1 |
| S-(1,2-dichlorovinyl)cysteine | decreases expression | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| abrine | decreases expression | 1 |
| bisphenol S | affects cotreatment, increases expression | 1 |
| NSC 689534 | affects binding, decreases expression | 1 |
| Zoledronic Acid | decreases expression | 1 |
| Acetaminophen | decreases expression | 1 |
| Copper | decreases expression, affects binding | 1 |
| Dexamethasone | increases expression, affects cotreatment | 1 |
| Estradiol | affects cotreatment, decreases expression | 1 |
| Estrogens | decreases expression, decreases reaction | 1 |
| Formaldehyde | decreases expression | 1 |
| Indomethacin | affects cotreatment, increases expression | 1 |
| Melphalan | decreases expression | 1 |
| Dronabinol | increases expression | 1 |
| Thiram | decreases expression | 1 |
| Tobacco Smoke Pollution | increases expression | 1 |
| 1-Methyl-3-isobutylxanthine | affects cotreatment, increases expression | 1 |
| Antirheumatic Agents | decreases expression | 1 |
| Copper Sulfate | decreases expression | 1 |
Clinical trials (associated diseases)
6 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00004333 | PHASE2 | COMPLETED | Phase II Study of the Enzyme Inhibitor NTBC for Tyrosinemia Type I |
| NCT03284658 | Not specified | WITHDRAWN | Biomarker for the Early Diagnosis and Monitoring in Tyrosinemia Type 1 (BioTyrosin) |
| NCT03655223 | Not specified | ENROLLING_BY_INVITATION | Early Check: Expanded Screening in Newborns |
| NCT04196959 | Not specified | COMPLETED | Evaluation of TYR Sphere |
| NCT05687474 | Not specified | COMPLETED | Baby Detect : Genomic Newborn Screening |
| NCT06298292 | Not specified | NOT_YET_RECRUITING | Acceptability/Tolerance of Protein Substitutes in Tablet Form for the Dietary Management of Rare Aminoacidopathies |
Related Atlas pages
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): tyrosinemia type I