SLC25A13
geneOn this page
Also known as CITRINARALAR2
Summary
SLC25A13 (solute carrier family 25 member 13, HGNC:10983) is a protein-coding gene on chromosome 7q21.3, encoding Electrogenic aspartate/glutamate antiporter SLC25A13, mitochondrial (Q9UJS0). Mitochondrial electrogenic aspartate/glutamate antiporter that favors efflux of aspartate and entry of glutamate and proton within the mitochondria as part of the malate-aspartate shuttle.
This gene is a member of the mitochondrial carrier family. The encoded protein contains four EF-hand Ca(2+) binding motifs in the N-terminal domain, and localizes to mitochondria. The protein catalyzes the exchange of aspartate for glutamate and a proton across the inner mitochondrial membrane, and is stimulated by calcium on the external side of the inner mitochondrial membrane. Mutations in this gene result in citrullinemia, type II. Multiple transcript variants encoding different isoforms have been found for this gene.
Source: NCBI Gene 10165 — RefSeq curated summary.
At a glance
- Gene–disease (curated): citrin deficiency (Definitive, ClinGen) — +3 more curated relationships
- GWAS associations: 5
- Clinical variants (ClinVar): 991 total — 102 pathogenic, 91 likely-pathogenic
- Phenotypes (HPO): 97
- Druggable target: yes
- Dosage sensitivity (ClinGen): haploinsufficiency autosomal recessive, triplosensitivity unscored
- MANE Select transcript:
NM_014251
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:10983 |
| Approved symbol | SLC25A13 |
| Name | solute carrier family 25 member 13 |
| Location | 7q21.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | CITRIN, ARALAR2 |
| Ensembl gene | ENSG00000004864 |
| Ensembl biotype | protein_coding |
| OMIM | 603859 |
| Entrez | 10165 |
Gene structure
Transcript identifiers
Ensembl transcripts: 17 — 11 protein_coding, 5 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay
ENST00000265631, ENST00000416240, ENST00000472162, ENST00000484495, ENST00000487710, ENST00000490072, ENST00000492869, ENST00000494085, ENST00000856214, ENST00000856215, ENST00000856216, ENST00000856217, ENST00000856218, ENST00000856219, ENST00000856220, ENST00000935610, ENST00000948397
RefSeq mRNA: 2 — MANE Select: NM_014251
NM_001160210, NM_014251
CCDS: CCDS55130, CCDS5645
Canonical transcript exons
ENST00000265631 — 18 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000434479 | 96121839 | 96121997 |
| ENSE00000706276 | 96189581 | 96189674 |
| ENSE00000706278 | 96189294 | 96189378 |
| ENSE00000706287 | 96146556 | 96146696 |
| ENSE00000706291 | 96131743 | 96131881 |
| ENSE00000706328 | 96121655 | 96121745 |
| ENSE00001086808 | 96234802 | 96234917 |
| ENSE00001086811 | 96193037 | 96193183 |
| ENSE00001086812 | 96191109 | 96191247 |
| ENSE00001830180 | 96321942 | 96322098 |
| ENSE00001937967 | 96120220 | 96121377 |
| ENSE00003511749 | 96184927 | 96185011 |
| ENSE00003541165 | 96296898 | 96296951 |
| ENSE00003595842 | 96277196 | 96277338 |
| ENSE00003634171 | 96208838 | 96208977 |
| ENSE00003635702 | 96171472 | 96171524 |
| ENSE00003650302 | 96170045 | 96170125 |
| ENSE00003668357 | 96184277 | 96184435 |
Expression profiles
Bgee: expression breadth ubiquitous, 283 present calls, max score 95.60.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 19.7957 / max 325.6449, expressed in 1798 samples.
FANTOM5 promoters (4 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 84995 | 17.8837 | 1793 |
| 84996 | 0.9646 | 674 |
| 84994 | 0.4754 | 235 |
| 84990 | 0.4719 | 151 |
Top tissues by expression
293 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| right lobe of liver | UBERON:0001114 | 95.60 | gold quality |
| liver | UBERON:0002107 | 95.52 | gold quality |
| secondary oocyte | CL:0000655 | 94.95 | gold quality |
| pigmented layer of retina | UBERON:0001782 | 93.89 | gold quality |
| retina | UBERON:0000966 | 93.86 | gold quality |
| tibia | UBERON:0000979 | 92.79 | gold quality |
| adrenal tissue | UBERON:0018303 | 92.14 | gold quality |
| corpus callosum | UBERON:0002336 | 91.76 | gold quality |
| buccal mucosa cell | CL:0002336 | 91.39 | gold quality |
| choroid plexus epithelium | UBERON:0003911 | 91.26 | gold quality |
| calcaneal tendon | UBERON:0003701 | 91.08 | gold quality |
| endometrium epithelium | UBERON:0004811 | 90.48 | gold quality |
| primordial germ cell in gonad | CL:0000670 ∩ UBERON:0000991 | 90.30 | gold quality |
| esophagus squamous epithelium | UBERON:0006920 | 89.95 | gold quality |
| inferior vagus X ganglion | UBERON:0005363 | 89.92 | gold quality |
| nephron tubule | UBERON:0001231 | 89.71 | gold quality |
| rectum | UBERON:0001052 | 89.33 | gold quality |
| C1 segment of cervical spinal cord | UBERON:0006469 | 89.18 | gold quality |
| oocyte | CL:0000023 | 89.09 | gold quality |
| male germ line stem cell (sensu Vertebrata) in testis | CL:0000089 ∩ UBERON:0000473 | 88.38 | gold quality |
| spinal cord | UBERON:0002240 | 88.30 | gold quality |
| sperm | CL:0000019 | 88.16 | gold quality |
| jejunal mucosa | UBERON:0000399 | 88.12 | gold quality |
| squamous epithelium | UBERON:0006914 | 88.12 | gold quality |
| skin of leg | UBERON:0001511 | 88.09 | gold quality |
| right adrenal gland cortex | UBERON:0035827 | 88.04 | gold quality |
| right uterine tube | UBERON:0001302 | 87.92 | gold quality |
| visceral pleura | UBERON:0002401 | 87.69 | gold quality |
| transverse colon | UBERON:0001157 | 87.68 | gold quality |
| monocyte | CL:0000576 | 87.54 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 2.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-GEOD-100618 | yes | 246.31 |
| E-ANND-3 | yes | 8.39 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
54 targeting SLC25A13, 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-3120-5P | 100.00 | 65.56 | 965 |
| HSA-MIR-3646 | 100.00 | 73.56 | 5283 |
| HSA-MIR-520D-5P | 99.98 | 73.34 | 4883 |
| HSA-MIR-524-5P | 99.98 | 73.43 | 4882 |
| HSA-MIR-6888-3P | 99.97 | 65.95 | 1170 |
| HSA-MIR-335-3P | 99.93 | 73.36 | 4958 |
| HSA-MIR-589-3P | 99.91 | 69.62 | 2088 |
| HSA-MIR-548E-5P | 99.89 | 72.73 | 4486 |
| HSA-MIR-9902 | 99.89 | 69.15 | 2250 |
| HSA-MIR-629-3P | 99.85 | 67.99 | 1875 |
| HSA-MIR-3663-3P | 99.84 | 70.39 | 798 |
| HSA-MIR-3681-5P | 99.82 | 66.88 | 387 |
| HSA-MIR-34B-5P | 99.78 | 67.56 | 1175 |
| HSA-MIR-449C-5P | 99.78 | 67.63 | 1168 |
| HSA-MIR-4713-5P | 99.78 | 67.80 | 1794 |
| HSA-MIR-3150A-3P | 99.76 | 64.44 | 1640 |
| HSA-MIR-6763-5P | 99.76 | 64.68 | 1767 |
| HSA-MIR-2682-5P | 99.73 | 67.38 | 1055 |
| HSA-MIR-4719 | 99.73 | 72.10 | 3329 |
| HSA-MIR-4524A-3P | 99.72 | 66.85 | 2406 |
| HSA-MIR-3175 | 99.65 | 66.30 | 2031 |
| HSA-MIR-6849-5P | 99.64 | 66.00 | 352 |
| HSA-MIR-548AV-5P | 99.60 | 70.84 | 2107 |
| HSA-MIR-548K | 99.60 | 70.84 | 2107 |
| HSA-MIR-1290 | 99.59 | 69.90 | 2079 |
| HSA-MIR-4328 | 99.57 | 71.06 | 4094 |
| HSA-MIR-4708-3P | 99.51 | 67.99 | 870 |
| HSA-MIR-12117 | 99.50 | 67.57 | 868 |
| HSA-MIR-8054 | 99.48 | 70.81 | 2084 |
| HSA-MIR-183-3P | 99.41 | 69.41 | 1598 |
Functional genomics
ClinGen dosage: haploinsufficiency 30 (autosomal recessive), triplosensitivity Not yet evaluated (unscored). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 40)
- 851del4/1638ins23 mutations in a Chinese adult onset type II citrullinaemia patient (PMID:11432966)
- genetic screening of mutations in early and late onset patients with citrin deficiency and in the Japanese population: identification of two novel mutations and establishment of multiple DNA diagnosis methods for nine mutations (PMID:11793471)
- Adult-onset type II citrullinemia is caused by mutations of the SLC25A13 gene (PMID:12111366)
- Adult-onset type II citrullinemia is caused by mutations of the SLC25A13 gene (PMID:16278034)
- Adult-onset type II citrullinemia is caused by mutations of the SLC25A13 gene (PMID:16928234)
- Citrullinemia is a metabolic disorder characterized by elevated plasma concentrations of citrulline and ammonia. Adult-onset citrullinemia (type II, CTLN2) has been attributed to citrin deficiency caused by mutations in the SLC25A13 gene. (PMID:17000460)
- Analysis of citrin protein in peripheral blood lymphocytes is useful to diagnose citrin deficiency in patients without known mutations or hypercitrullinemia. (PMID:17092749)
- This report describes the clinical characteristics, biochemical findings and molecular analysis of the SLC25A13 gene of patients with citrin deficiency in Korea. (PMID:17982687)
- report 13 novel SLC25A13 mutations (one insertion, two deletion, three splice site, two nonsense, and five missense) in patients with citrin deficiency from Japan, Israel, UK, and Czech Republic (PMID:18392553)
- SLC25A13 gene mutations exist in Chinese infants with intrahepatic cholestasis and abnormal blood amino acids. (PMID:18578996)
- Patients presenting with non-alcoholic fatty liver unrelated to obesity and metabolic syndrome might have citrin deficiency, caused by SLC25A13 gene mutations. (PMID:18620775)
- Case Report: suggest that the administration of arginine and sodium pyruvate with low-carbohydrate meals may be an effective therapy in patients with citrin deficiency. (PMID:18958581)
- 5 novel mutations were found in SLC25A13 from three unrelated French-Canadian Citrin deficiency patients. (PMID:19036621)
- Results of this study showed, even during the silent period, sustained hypercitrullinemia, hypercholesterolemia, and augmented oxidative stress in children with citrin deficiency. (PMID:19232506)
- The first two cases of NICCD are described in infants from the UK, one of Caucasian and one of Pakistani origin. (PMID:19517266)
- The historical aspects of citrin and citrin deficiency, characteristic food preference and food aversion of citrin-deficient subjects, and carbohydrate toxicity in relation to ureogenesis, is described. (PMID:20233664)
- The 851del4, 1638ins23 and IVS6+5G>A mutations are the hot-spot mutations in Chinese patients with neonatal intrahepatic cholestasis caused by citrin deficiency. (PMID:20376801)
- Four hundred infants with unexplained intrahepatic cholestasis from 18 China were studied for detecting SLC25A13 gene mutation 851del4. Eight homozygous and 30 heterozygous mutations were detected in 46 mutant alleles with a 851del4 mutation rate of 5.8%. (PMID:20458766)
- We report three unrelated Malay children with genetically confirmed neonatal intrahepatic cholestatic caused by citrin deficiency characterised by an insertion mutation IVS16ins3kb in SLC25A13 gene (PMID:20614727)
- MDR analysis provided evidence of interaction between the genes for ASS1 and SLC25A13 on the risk of CL/P. (PMID:20739017)
- SLC25A13 gene mutations play an important role in Chinese infants with intrahepatic cholestasis and various forms of aminoacidemia; 851del4 and 1638ins23 are the most common mutation types (PMID:20927635)
- The SLC25A13 mutations may not be a major contributor to the pathogenesis of hepatocellular carcinoma in Taiwan. (PMID:21134364)
- this study expanded the genotypic and phenotypic spectrum of citrin deficiency. (PMID:21424115)
- individuals with non-viral HCC were more likely to possess SLC25A13 gene mutations compared to healthy subjects (PMID:21470889)
- Seven genetic variations of SLC25A13, termed as 851del4, 1638ins23, IVS16ins3kb, IVS6+5G>A, c.775C>T (p.Q259X), c.1505C>T (p.P502L) and c.1311C>T (p.C437C), were identified (PMID:21507300)
- Functional studies, carried out on the recombinant mutant protein containing glutamate at position 437, demonstrated that neonatal intrahepatic cholestasis caused by citrin deficiency is caused by a reduced transport activity of SLC25A13 (PMID:21914561)
- Mutations in SLC25A13 are associated with citrin deficiency. (PMID:22277121)
- A protein encoded by this locus was found to be differentially expressed in postmortem brains from patients with atypical frontotemporal lobar degeneration. (PMID:22360420)
- In 171 suspected patients, seven neonatal intrahepatic cholestasis caused by citrin deficiency patients were detected by HRM. (PMID:22487826)
- uncovered the marked transcript diversity of SLC25A13 gene in human PBLs, and suggested that cDNA cloning analysis of this gene in human PBLs might be a feasible tool for CD molecular diagno (PMID:23022256)
- Analysis of the SLC25A13 gene sequence. (PMID:23053473)
- The objectives were to study the prevalence of neonatal intrahepatic cholestasis caused by citrin deficiency (NICCD) in Thai infants with idiopathic cholestasis, mutation spectrum of SLC25A13 in Thai NICCD, and comparison of clinical manifestations and blood chemistry between NICCD and non-NICCD infants. (PMID:23067347)
- Compares and contrasts all the known human SLC25A* genes and includes functional information. (PMID:23266187)
- The SLC25A13 mutation spectra among the three regions of China were different, providing a basis for the improvement of diagnostic strategies and interpretation of genetic diagnosis. (PMID:23901231)
- Identification of novel SLC25A13 gene mutations in East Asian patients with citrin deficiency. (PMID:24069319)
- Report frequency SLC25A13 mutations in the Thai population and estimate prevalence of citrin deficiency. (PMID:24282362)
- we reviewed the English literature on mutations in the SLC25A13 gene, and its genotype-phenotype correlations to provide valuable insights into the molecular genetic background of citrullinemia–{REVIEW} (PMID:24508627)
- Point mutation of ASS1, ASL and SLC25A13 is associated with citrullinemia. (PMID:24927999)
- This study aims to screen for five prevalent SLC25A13 mutations, to calculate the mutation carrier rate in Guangdong. (PMID:25110155)
- Mutation screening of the SLC25A13 gene revealed the compound heterozygous mutations c.1081C>T (p.R361*) and c.74C>A (p. A25E) which confirmed the diagnosis of NICCD. The nonsense mutation c.1081C>T (p.R361*) is novel. (PMID:25365849)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | slc25a13 | ENSDARG00000099353 |
| mus_musculus | Slc25a13 | ENSMUSG00000015112 |
| rattus_norvegicus | Slc25a13 | ENSRNOG00000009957 |
Paralogs (49): SLC25A5 (ENSG00000005022), SLC25A39 (ENSG00000013306), SLC25A40 (ENSG00000075303), SLC25A3 (ENSG00000075415), SLC25A43 (ENSG00000077713), SLC25A24 (ENSG00000085491), SLC25A1 (ENSG00000100075), SLC25A17 (ENSG00000100372), SLC25A14 (ENSG00000102078), SLC25A15 (ENSG00000102743), SLC25A11 (ENSG00000108528), UCP1 (ENSG00000109424), SLC25A36 (ENSG00000114120), SLC25A12 (ENSG00000115840), SLC25A2 (ENSG00000120329), SLC25A51 (ENSG00000122696), SLC25A16 (ENSG00000122912), SLC25A35 (ENSG00000125434), SLC25A19 (ENSG00000125454), SLC25A23 (ENSG00000125648), SLC25A47 (ENSG00000140107), SLC25A52 (ENSG00000141437), SLC25A38 (ENSG00000144659), SLC25A26 (ENSG00000144741), SLC25A48 (ENSG00000145832), SLC25A37 (ENSG00000147454), SLC25A25 (ENSG00000148339), SLC25A31 (ENSG00000151475), SLC25A4 (ENSG00000151729), SLC25A27 (ENSG00000153291), SLC25A28 (ENSG00000155287), SLC25A44 (ENSG00000160785), SLC25A45 (ENSG00000162241), SLC25A34 (ENSG00000162461), SLC25A32 (ENSG00000164933), SLC25A6 (ENSG00000169100), SLC25A33 (ENSG00000171612), SLC25A30 (ENSG00000174032), UCP3 (ENSG00000175564), UCP2 (ENSG00000175567)
Protein
Protein identifiers
Electrogenic aspartate/glutamate antiporter SLC25A13, mitochondrial — Q9UJS0 (reviewed: Q9UJS0)
Alternative names: Calcium-binding mitochondrial carrier protein Aralar2, Citrin, Mitochondrial aspartate glutamate carrier 2, Solute carrier family 25 member 13
All UniProt accessions (2): Q9UJS0, R4GN64
UniProt curated annotations — full annotation on UniProt →
Function. Mitochondrial electrogenic aspartate/glutamate antiporter that favors efflux of aspartate and entry of glutamate and proton within the mitochondria as part of the malate-aspartate shuttle. Substrate exchange across the membrane occurs consecutively with one substrate being transported first, then dissociating from the substrate binding site before the second substrate binds for transport in the opposite direction. Also mediates the uptake of L-cysteinesulfinate (3-sulfino-L-alanine) by mitochondria in exchange for L-glutamate and proton. Can also exchange L-cysteinesulfinate with aspartate in their anionic form without any proton translocation. Lacks transport activity towards gamma-aminobutyric acid (GABA).
Subunit / interactions. Homodimer (via N-terminus).
Subcellular location. Mitochondrion inner membrane.
Tissue specificity. High levels in liver and low levels in kidney, pancreas, placenta, heart and brain.
Disease relevance. Citrin deficiency, adolescent or adult onset (CDAA) [MIM:603471] An autosomal recessive metabolic disorder characterized by elevated serum and urine citrulline levels, ammonia intoxication, and neuropsychiatric symptoms including abnormal behaviors, loss of memory, seizures and coma. Death can result from brain edema. The disease is caused by variants affecting the gene represented in this entry. Citrin deficiency, neonatal or infantile onset (CDNI) [MIM:605814] An autosomal recessive metabolic disorder characterized by increased serum citrulline, poor growth, and neonatal intrahepatic cholestasis with suppression of the bile flow, hepatic fibrosis and variable liver dysfunction. Most patients show spontaneous improvement of symptoms by 1 year of age. However, some affected individuals may develop chronic or fatal liver disease. The disease is caused by variants affecting the gene represented in this entry.
Activity regulation. Activated by calcium-binding in the mitochondrial intermembrane space. Inhibited by pyridoxal 5’-phosphate, bathophenathroline, mercurials, diethyl pyrocarbonate and N-ethylmaleimide.
Domain organisation. The EF-hand 2 domain within the regulatory N-terminal domain binds one calcium in the mitochondrial intermembrane space. Calcium triggers the binding of the regulatory N-terminal domain to the C-terminal domain, opening a vestibule which allows the substrates to be translocated through the carrier domain. In the absence of calcium, the linker loop domain may close the vestibule and prevent substrates from entering the carrier domain.
Similarity. Belongs to the mitochondrial carrier (TC 2.A.29) family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q9UJS0-1 | 1 | yes |
| Q9UJS0-2 | 2 |
RefSeq proteins (2): NP_001153682, NP_055066* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR002048 | EF_hand_dom | Domain |
| IPR002067 | MCP | Family |
| IPR011992 | EF-hand-dom_pair | Homologous_superfamily |
| IPR018108 | MCP_transmembrane | Repeat |
| IPR023395 | MCP_dom_sf | Homologous_superfamily |
| IPR051028 | Mito_Solute_Carrier | Family |
Pfam: PF00153
Catalyzed reactions (Rhea), 3 shown:
- L-aspartate(in) + L-glutamate(out) + H(+)(out) = L-aspartate(out) + L-glutamate(in) + H(+)(in) (RHEA:70783)
- 3-sulfino-L-alanine(out) + L-glutamate(in) + H(+)(in) = 3-sulfino-L-alanine(in) + L-glutamate(out) + H(+)(out) (RHEA:70967)
- 3-sulfino-L-alanine(out) + L-aspartate(in) = 3-sulfino-L-alanine(in) + L-aspartate(out) (RHEA:70975)
UniProt features (100 total): mutagenesis site 26, helix 20, modified residue 9, topological domain 7, transmembrane region 6, strand 6, binding site 5, domain 4, region of interest 4, repeat 3, sequence variant 3, sequence conflict 2, turn 2, initiator methionine 1, chain 1, splice variant 1
Structure
Experimental structures (PDB)
1 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 4P5W | X-RAY DIFFRACTION | 2.4 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9UJS0-F1 | 83.09 | 0.36 |
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 (5): 66; 68; 70; 72; 77
Post-translational modifications (9): 2, 353, 372, 453, 484, 484, 580, 662, 666
Mutagenesis-validated functional residues (26):
| Position | Phenotype |
|---|---|
| 25 | reduces transporter activity. |
| 39 | no effect on mitochondrial localization. |
| 66 | does not affect transporter activity, folding, dimeric state or mitochondrial localization; when associated with a-68, a |
| 68 | does not affect transporter activity, folding, dimeric state or mitochondrial localization; when associated with a-66, a |
| 70 | does not affect transporter activity, folding, dimeric state or mitochondrial localization; when associated with a-66, a |
| 74 | slightly reduces transporter activity. |
| 77 | does not affect transporter activity, folding, dimeric state or mitochondrial localization; when associated with a-66, a |
| 85 | increases transporter activity. |
| 95 | reduces transporter activity. |
| 139 | reduces transporter activity. |
| 176 | reduces transporter activity. |
| 350 | reduces transporter activity. |
| 355 | reduces transporter activity. |
| 393 | reduces transporter activity. |
| 405 | abolishes transporter activity. |
| 453 | slightly reduces transporter activity. |
| 455 | abolishes transporter activity. |
| 489 | abolishes transporter activity. |
| 493 | abolishes transporter activity. |
| 500 | primarily cytoplasmic. |
| 531 | reduces transporter activity. |
| 546 | abolishes transporter activity. |
| 585 | abolishes transporter activity. |
| 588 | reduces mitochondrial localization. |
| 588 | abolishes transporter activity. |
Function
Pathways and Gene Ontology
Reactome pathways
8 pathways
| ID | Pathway |
|---|---|
| R-HSA-1268020 | Mitochondrial protein import |
| R-HSA-8963693 | Aspartate and asparagine metabolism |
| R-HSA-9856872 | Malate-aspartate shuttle |
| R-HSA-1428517 | Aerobic respiration and respiratory electron transport |
| R-HSA-1430728 | Metabolism |
| R-HSA-611105 | Respiratory electron transport |
| R-HSA-71291 | Metabolism of amino acids and derivatives |
| R-HSA-9609507 | Protein localization |
MSigDB gene sets: 443 (showing top):
GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, GOBP_ORGANOPHOSPHATE_METABOLIC_PROCESS, BROWNE_HCMV_INFECTION_16HR_UP, TGACCTY_ERR1_Q2, GOBP_NUCLEOSIDE_PHOSPHATE_BIOSYNTHETIC_PROCESS, GOBP_AMINO_ACID_TRANSMEMBRANE_TRANSPORT, GOBP_ORGANOPHOSPHATE_BIOSYNTHETIC_PROCESS, SHIPP_DLBCL_CURED_VS_FATAL_DN, GOBP_MITOCHONDRIAL_TRANSPORT, GOBP_CARBOHYDRATE_DERIVATIVE_METABOLIC_PROCESS, GOBP_NADPLUS_METABOLIC_PROCESS, GOBP_MONOATOMIC_CATION_TRANSPORT, GOBP_ORGANIC_ACID_TRANSPORT, GOBP_RESPONSE_TO_METAL_ION
GO Biological Process (12): gluconeogenesis (GO:0006094), ATP biosynthetic process (GO:0006754), mitochondrial transport (GO:0006839), aspartate transmembrane transport (GO:0015810), L-glutamate transmembrane transport (GO:0015813), malate-aspartate shuttle (GO:0043490), cellular respiration (GO:0045333), response to calcium ion (GO:0051592), neutral amino acid transport (GO:0015804), transmembrane transport (GO:0055085), L-aspartate transmembrane transport (GO:0070778), proton transmembrane transport (GO:1902600)
GO Molecular Function (9): 3-sulfino-L-alanine: proton, glutamate antiporter activity (GO:0000514), aspartate:glutamate, proton antiporter activity (GO:0000515), L-glutamate transmembrane transporter activity (GO:0005313), calcium ion binding (GO:0005509), L-aspartate transmembrane transporter activity (GO:0015183), identical protein binding (GO:0042802), protein binding (GO:0005515), acidic amino acid transmembrane transporter activity (GO:0015172), metal ion binding (GO:0046872)
GO Cellular Component (4): mitochondrion (GO:0005739), mitochondrial inner membrane (GO:0005743), plasma membrane (GO:0005886), membrane (GO:0016020)
Reactome top-level categories
Rollup of top-5 pathways:
| Category | Pathways |
|---|---|
| Metabolism | 2 |
| Protein localization | 1 |
| Metabolism of amino acids and derivatives | 1 |
| Respiratory electron transport | 1 |
| Aerobic respiration and respiratory electron transport | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| L-amino acid transmembrane transporter activity | 3 |
| acidic amino acid transport | 2 |
| L-alpha-amino acid transmembrane transport | 2 |
| dicarboxylic acid transmembrane transporter activity | 2 |
| acidic amino acid transmembrane transporter activity | 2 |
| glucose metabolic process | 1 |
| hexose biosynthetic process | 1 |
| purine ribonucleotide biosynthetic process | 1 |
| purine ribonucleoside triphosphate biosynthetic process | 1 |
| ATP metabolic process | 1 |
| intracellular transport | 1 |
| amino acid transmembrane transport | 1 |
| C4-dicarboxylate transport | 1 |
| nitrogen compound transport | 1 |
| carboxylic acid transmembrane transport | 1 |
| L-glutamate import | 1 |
| L-aspartate:2-oxoglutarate transaminase activity | 1 |
| NAD+ metabolic process | 1 |
| L-malate dehydrogenase (NAD+) activity | 1 |
| mitochondrial transmembrane transport | 1 |
| energy derivation by oxidation of organic compounds | 1 |
| response to metal ion | 1 |
| amino acid transport | 1 |
| transport | 1 |
| cellular process | 1 |
| aspartate transmembrane transport | 1 |
| monoatomic cation transmembrane transport | 1 |
| sulfur amino acid transmembrane transporter activity | 1 |
| proton transmembrane transporter activity | 1 |
| neutral L-amino acid transmembrane transporter activity | 1 |
| modified amino acid transmembrane transporter activity | 1 |
| amino acid:monoatomic cation antiporter activity | 1 |
| L-aspartate transmembrane transporter activity | 1 |
| L-glutamate:proton antiporter activity | 1 |
| L-glutamate transmembrane transport | 1 |
| metal ion binding | 1 |
| C4-dicarboxylate transmembrane transporter activity | 1 |
| L-aspartate transmembrane transport | 1 |
| protein binding | 1 |
| binding | 1 |
Protein interactions and networks
STRING
1370 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| SLC25A13 | ASS1 | P00966 | 946 |
| SLC25A13 | TIMM13 | P62206 | 928 |
| SLC25A13 | TIMM8A | O60220 | 872 |
| SLC25A13 | TIMM23 | O14925 | 856 |
| SLC25A13 | TIMM9 | Q9Y5J7 | 717 |
| SLC25A13 | TIMM10 | P62072 | 656 |
| SLC25A13 | NAGS | Q8N159 | 609 |
| SLC25A13 | RALGAPB | Q86X10 | 547 |
| SLC25A13 | SLC25A11 | Q02978 | 536 |
| SLC25A13 | MTCH1 | Q9NZJ7 | 529 |
| SLC25A13 | TIMM22 | Q9Y584 | 519 |
| SLC25A13 | MCU | Q8NE86 | 508 |
| SLC25A13 | ASL | P04424 | 507 |
| SLC25A13 | OTC | P00480 | 506 |
| SLC25A13 | MIMS1 | Q96ND0 | 505 |
IntAct
178 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| IKBKB | CHUK | psi-mi:“MI:0914”(association) | 0.960 |
| RAD51D | RAD51B | psi-mi:“MI:0914”(association) | 0.850 |
| CTSV | CTSL | psi-mi:“MI:0914”(association) | 0.720 |
| CFTR | ESYT2 | psi-mi:“MI:2364”(proximity) | 0.710 |
| CFTR | ESYT2 | psi-mi:“MI:0914”(association) | 0.710 |
| IFT27 | IFT56 | psi-mi:“MI:0914”(association) | 0.690 |
| SLC25A13 | SLC25A12 | psi-mi:“MI:0915”(physical association) | 0.690 |
| TIMM10 | AGK | psi-mi:“MI:0914”(association) | 0.640 |
| CANX | PGRMC1 | psi-mi:“MI:0914”(association) | 0.570 |
| ILK | HAX1 | psi-mi:“MI:0914”(association) | 0.530 |
| IRAK1 | SEC16A | psi-mi:“MI:0914”(association) | 0.530 |
| COQ2 | SLC25A5 | psi-mi:“MI:0914”(association) | 0.530 |
| GRB2 | SH3PXD2B | psi-mi:“MI:0914”(association) | 0.530 |
| DDX21 | MED19 | psi-mi:“MI:2364”(proximity) | 0.480 |
| TUBA1A | TUBAL3 | psi-mi:“MI:0914”(association) | 0.420 |
| SLC25A13 | APOD | psi-mi:“MI:0915”(physical association) | 0.400 |
| KLK10 | SLC25A13 | psi-mi:“MI:0915”(physical association) | 0.400 |
| AATK | DPM1 | psi-mi:“MI:0914”(association) | 0.350 |
| ARAF | PPP6C | psi-mi:“MI:0914”(association) | 0.350 |
| LIMK2 | CALU | psi-mi:“MI:0914”(association) | 0.350 |
| SIK2 | BAG2 | psi-mi:“MI:0914”(association) | 0.350 |
| OTUB1 | psi-mi:“MI:0914”(association) | 0.350 | |
| OTUB1 | EPM2A | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (347): SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS), ELAVL1 (Co-fractionation), IMMT (Co-fractionation), SLC25A13 (Affinity Capture-MS), SLC25A13 (Affinity Capture-MS)
ESM2 similar proteins: A2ASZ8, A2CEQ0, A5PJZ1, B4F8I5, B8ZHC9, F1LX07, F1LZW6, F4HW79, F4JU70, K7VYZ9, O13805, O18757, O65023, O75746, P0C546, Q05AQ3, Q0P483, Q0V7M4, Q19529, Q20799, Q21153, Q5PQ27, Q5RBC8, Q5XH95, Q5XHA0, Q628Z2, Q66L49, Q6C107, Q6GQS1, Q6KCM7, Q6NUK1, Q6NYZ6, Q7T0U6, Q7ZY36, Q7ZYD5, Q86VD7, Q8BH59, Q8BMD8, Q8BVN7, Q8HXW2
Diamond homologs: A0A0G2K5L2, A2ADF7, A4QNX2, B0G143, F1LX07, F1LZW6, F1RFX9, O13844, O43772, O75746, P16261, P39953, Q02978, Q08DK4, Q0II44, Q12482, Q1DRJ3, Q21153, Q26365, Q3KQZ1, Q3TZX3, Q4V8K4, Q505J6, Q54QN2, Q54RB9, Q552L9, Q58DS3, Q5B717, Q5RBC8, Q5RD81, Q5SWT3, Q5XIF9, Q5ZKP7, Q66L49, Q68F18, Q6ZT89, Q75AH6, Q7PQV7, Q86AV5, Q8BH59
SIGNOR signaling
3 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| calcium(2+) | “up-regulates activity” | SLC25A13 | “chemical activation” |
| SLC25A13 | “down-regulates quantity” | “glutamic acid” | relocalization |
| SLC25A13 | “up-regulates quantity” | “aspartic acid” | relocalization |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 212 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 |
|---|---|---|---|
| Resolution of D-loop Structures through Holliday Junction Intermediates | 6 | 12.1× | 4e-03 |
| Homology Directed Repair | 5 | 10.4× | 7e-03 |
| HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA) | 5 | 10.4× | 7e-03 |
| TAK1-dependent IKK and NF-kappa-B activation | 5 | 10.1× | 7e-03 |
| Selective autophagy | 5 | 9.3× | 7e-03 |
| Adherens junctions interactions | 5 | 8.3× | 9e-03 |
| DNA Double-Strand Break Repair | 5 | 8.3× | 9e-03 |
| Aggrephagy | 5 | 8.3× | 9e-03 |
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| pre-miRNA processing | 5 | 31.2× | 5e-04 |
| obsolete protein targeting to mitochondrion | 5 | 16.1× | 9e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
991 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 102 |
| Likely pathogenic | 91 |
| Uncertain significance | 237 |
| Likely benign | 419 |
| Benign | 34 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1068567 | NM_014251.3(SLC25A13):c.420del (p.Glu141fs) | Pathogenic |
| 1069861 | NC_000007.13:g.(?95906498)(95906660_?)del | Pathogenic |
| 1070090 | NM_014251.3(SLC25A13):c.475C>T (p.Gln159Ter) | Pathogenic |
| 1070408 | NM_014251.3(SLC25A13):c.1751-5_1751-4insGATTTCTCCATTTTTTTTTTTTTTTTTNNNNNNNNNNGTCCCCCCGCCCCCCGAGCCCGAACCCCTTTCCACTGCCAACACCTCACCTCGCCCCCGCCGCCATCTTCCTCCTCCCTTGGCAGCCCCGCCCCCC | Pathogenic |
| 1071593 | NM_014251.3(SLC25A13):c.1173dup (p.Arg392Ter) | Pathogenic |
| 1071972 | NC_000007.13:g.(?95838140)(95838299_?)del | Pathogenic |
| 1071973 | NC_000007.13:g.(?95761045)(95761203_?)dup | Pathogenic |
| 1073569 | NM_014251.3(SLC25A13):c.792del (p.Thr265fs) | Pathogenic |
| 1075398 | NM_014251.3(SLC25A13):c.1063C>G (p.Arg355Gly) | Pathogenic |
| 1075399 | NM_014251.3(SLC25A13):c.173_174del (p.Val58fs) | Pathogenic |
| 1351050 | NM_014251.3(SLC25A13):c.1633_1637dup (p.Leu548fs) | Pathogenic |
| 1359671 | NM_014251.3(SLC25A13):c.1603_1609dup (p.Leu537fs) | Pathogenic |
| 1361197 | NM_014251.3(SLC25A13):c.1228dup (p.Thr410fs) | Pathogenic |
| 1366582 | NM_014251.3(SLC25A13):c.132C>G (p.Tyr44Ter) | Pathogenic |
| 1379532 | NM_014251.3(SLC25A13):c.1610del (p.Ser536_Leu537insTer) | Pathogenic |
| 1382583 | NM_014251.3(SLC25A13):c.1486_1489del (p.Phe496fs) | Pathogenic |
| 1385282 | NM_014251.3(SLC25A13):c.1612del (p.Leu537_Val538insTer) | Pathogenic |
| 1386444 | NM_014251.3(SLC25A13):c.94G>T (p.Glu32Ter) | Pathogenic |
| 1388183 | NM_014251.3(SLC25A13):c.1453-2A>T | Pathogenic |
| 1401121 | NM_014251.3(SLC25A13):c.848+1G>A | Pathogenic |
| 1405696 | NM_014251.3(SLC25A13):c.1324C>T (p.Gln442Ter) | Pathogenic |
| 1408381 | NM_014251.3(SLC25A13):c.124del (p.Thr42fs) | Pathogenic |
| 1420534 | NM_014251.3(SLC25A13):c.1416_1419del (p.Val473fs) | Pathogenic |
| 1425711 | NM_014251.3(SLC25A13):c.111del (p.Asn38fs) | Pathogenic |
| 1451917 | NM_014251.3(SLC25A13):c.1095del (p.Phe365fs) | Pathogenic |
| 1453939 | NM_014251.3(SLC25A13):c.457C>T (p.Gln153Ter) | Pathogenic |
| 1458599 | NM_014251.3(SLC25A13):c.640C>T (p.Gln214Ter) | Pathogenic |
| 1458843 | NC_000007.13:g.(?95812693)(95813744_?)del | Pathogenic |
| 1459235 | NM_014251.3(SLC25A13):c.1075C>T (p.Gln359Ter) | Pathogenic |
| 1459776 | NC_000007.13:g.(?95749522)(95751319_?)del | Pathogenic |
SpliceAI
4311 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 7:96121374:TTTT:T | acceptor_gain | 1.0000 |
| 7:96121375:TTT:T | acceptor_gain | 1.0000 |
| 7:96121376:TT:T | acceptor_gain | 1.0000 |
| 7:96121376:TTCTA:T | acceptor_loss | 1.0000 |
| 7:96121377:TC:T | acceptor_loss | 1.0000 |
| 7:96121378:C:CC | acceptor_gain | 1.0000 |
| 7:96121379:T:C | acceptor_loss | 1.0000 |
| 7:96121646:GATAC:G | donor_loss | 1.0000 |
| 7:96121649:AC:A | donor_loss | 1.0000 |
| 7:96121650:CT:C | donor_loss | 1.0000 |
| 7:96121651:TTAC:T | donor_loss | 1.0000 |
| 7:96121652:TACAC:T | donor_loss | 1.0000 |
| 7:96121653:A:AC | donor_gain | 1.0000 |
| 7:96121653:A:C | donor_loss | 1.0000 |
| 7:96121653:ACACT:A | donor_gain | 1.0000 |
| 7:96121654:C:CA | donor_gain | 1.0000 |
| 7:96121654:CA:C | donor_gain | 1.0000 |
| 7:96121654:CACT:C | donor_gain | 1.0000 |
| 7:96121654:CACTC:C | donor_gain | 1.0000 |
| 7:96121742:CGAG:C | acceptor_gain | 1.0000 |
| 7:96121746:C:CC | acceptor_gain | 1.0000 |
| 7:96121747:T:C | acceptor_gain | 1.0000 |
| 7:96121748:T:C | acceptor_gain | 1.0000 |
| 7:96121748:T:TC | acceptor_gain | 1.0000 |
| 7:96121834:CATA:C | donor_loss | 1.0000 |
| 7:96121835:ATACC:A | donor_loss | 1.0000 |
| 7:96121836:TA:T | donor_loss | 1.0000 |
| 7:96121838:CCA:C | donor_gain | 1.0000 |
| 7:96121847:C:CA | donor_gain | 1.0000 |
| 7:96121851:T:TA | donor_gain | 1.0000 |
AlphaMissense
4364 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 7:96121717:A:C | F593L | 1.000 |
| 7:96121717:A:T | F593L | 1.000 |
| 7:96121719:A:G | F593L | 1.000 |
| 7:96121894:G:C | C565W | 1.000 |
| 7:96121954:C:A | K545N | 1.000 |
| 7:96121954:C:G | K545N | 1.000 |
| 7:96121965:C:G | D542H | 1.000 |
| 7:96131856:T:G | D493A | 1.000 |
| 7:96131857:C:G | D493H | 1.000 |
| 7:96146649:C:A | K453N | 1.000 |
| 7:96146649:C:G | K453N | 1.000 |
| 7:96146667:A:C | N447K | 1.000 |
| 7:96146667:A:T | N447K | 1.000 |
| 7:96184277:C:G | G393R | 1.000 |
| 7:96184323:A:C | C377W | 1.000 |
| 7:96184383:C:A | Q357H | 1.000 |
| 7:96184383:C:G | Q357H | 1.000 |
| 7:96184395:T:A | K353N | 1.000 |
| 7:96184395:T:G | K353N | 1.000 |
| 7:96184402:A:G | L351P | 1.000 |
| 7:96184405:T:C | D350G | 1.000 |
| 7:96184405:T:G | D350A | 1.000 |
| 7:96184406:C:G | D350H | 1.000 |
| 7:96184430:C:G | G342R | 1.000 |
| 7:96184430:C:T | G342R | 1.000 |
| 7:96121715:C:T | G594D | 0.999 |
| 7:96121718:A:C | F593C | 0.999 |
| 7:96121718:A:G | F593S | 0.999 |
| 7:96121720:C:A | Q592H | 0.999 |
| 7:96121720:C:G | Q592H | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000007122 (7:96295254 C>G), RS1000009566 (7:96122988 C>T), RS1000014049 (7:96152475 G>A), RS1000047320 (7:96309164 C>T), RS1000087678 (7:96159031 T>C), RS1000093526 (7:96288932 T>C,G), RS1000102161 (7:96205292 T>A), RS1000123398 (7:96203911 G>A), RS1000156296 (7:96248035 C>A), RS1000159989 (7:96160438 G>A), RS1000185081 (7:96179031 G>T), RS1000186961 (7:96268025 T>C), RS1000206393 (7:96299975 T>G), RS1000223245 (7:96164767 G>C), RS1000238159 (7:96225383 A>G,T)
Disease associations
OMIM: gene MIM:603859 | disease phenotypes: MIM:215700, MIM:603471, MIM:605814
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| citrullinemia, type II, adult-onset | Strong | Autosomal recessive |
| neonatal intrahepatic cholestasis due to citrin deficiency | Strong | Autosomal recessive |
| citrullinemia type II | Supportive | Autosomal recessive |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| citrin deficiency | Definitive | AR |
Mondo (8): citrin deficiency (MONDO:0016602), citrullinemia (MONDO:0015991), citrullinemia, type II, adult-onset (MONDO:0011326), neonatal intrahepatic cholestasis due to citrin deficiency (MONDO:0011601), citrullinemia type II (MONDO:0016603), adult-onset citrullinemia type I (MONDO:0016601), citrullinemia type I (MONDO:0008988), megacolon (MONDO:0001273)
Orphanet (6): Citrin deficiency (Orphanet:247582), Citrullinemia (Orphanet:187), Citrullinemia type II (Orphanet:247585), Neonatal intrahepatic cholestasis due to citrin deficiency (Orphanet:247598), Late-onset citrullinemia type I (Orphanet:247573), Citrullinemia type I (Orphanet:247525)
HPO phenotypes
97 total (30 of 97 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000518 | Cataract |
| HP:0000709 | Psychosis |
| HP:0000711 | Restlessness |
| HP:0000718 | Aggressive behavior |
| HP:0000737 | Irritability |
| HP:0000738 | Hallucinations |
| HP:0000746 | Delusion |
| HP:0000752 | Hyperactivity |
| HP:0000805 | Enuresis |
| HP:0000952 | Jaundice |
| HP:0001250 | Seizure |
| HP:0001254 | Lethargy |
| HP:0001259 | Coma |
| HP:0001263 | Global developmental delay |
| HP:0001289 | Confusion |
| HP:0001337 | Tremor |
| HP:0001394 | Cirrhosis |
| HP:0001395 | Hepatic fibrosis |
| HP:0001396 | Cholestasis |
| HP:0001397 | Hepatic steatosis |
| HP:0001402 | Hepatocellular carcinoma |
| HP:0001403 | Macrovesicular hepatic steatosis |
| HP:0001406 | Intrahepatic cholestasis |
| HP:0001414 | Microvesicular hepatic steatosis |
| HP:0001433 | Hepatosplenomegaly |
| HP:0001508 | Failure to thrive |
| HP:0001510 | Growth delay |
| HP:0001511 | Intrauterine growth retardation |
| HP:0001531 | Failure to thrive in infancy |
GWAS associations
5 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST007691_29 | Femoral neck bone mineral density | 8.000000e-48 |
| GCST008163_28 | Height | 4.000000e-06 |
| GCST010135_40 | Oily fish consumption | 1.000000e-08 |
| GCST010140_30 | Pork consumption | 1.000000e-08 |
| GCST012332_84 | Multisite chronic pain | 6.000000e-09 |
EFO canonical traits (3, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0007785 | femoral neck bone mineral density |
| EFO:0008111 | diet measurement |
| EFO:0010100 | multisite chronic pain |
MeSH disease descriptors (3)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D020159 | Citrullinemia | C10.228.140.163.100.937.374; C16.320.565.100.940.374; C16.320.565.189.937.374; C18.452.132.100.937.374; C18.452.648.100.940.374; C18.452.648.189.937.374 |
| D008531 | Megacolon | C06.405.469.158.701 |
| C536398 | Neonatal-onset citrullinemia type 2 (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL6067317 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
PharmGKB variants
1 variants.
| Variant | Genes | Level | Score | #Clin annots | Drugs |
|---|---|---|---|---|---|
| rs768172 | SLC25A13 | 0.00 | 0 |
GtoPdb / IUPHAR curated pharmacology
(IUPHAR/BPS Guide to Pharmacology — expert-curated)
Target class: transporter — Mitochondrial amino acid transporter subfamily
ChEMBL bioactivities
2 potent at pChembl≥5 of 2 total, top 2 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 5.93 | Kd | 1178 | nM | CHEMBL3752910 |
| 5.93 | ED50 | 1178 | nM | CHEMBL3752910 |
PubChem BioAssay actives
1 with measured affinity, of 2 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.
| Compound | Assay | Type | Value | Unit |
|---|---|---|---|---|
| 4-methyl-3-[(1-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide | 2149407: Binding affinity to human SLC25A13 incubated for 45 mins by Kinobead based pull down assay | kd | 1.1779 | uM |
CTD chemical–gene interactions
46 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | decreases expression | 6 |
| Valproic Acid | affects cotreatment, increases expression, affects expression, decreases methylation | 4 |
| 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide | decreases expression | 3 |
| sodium arsenite | decreases expression, affects binding, increases reaction | 2 |
| perfluorooctane sulfonic acid | decreases expression | 2 |
| Acetaminophen | decreases expression | 2 |
| Cisplatin | decreases reaction, increases expression, decreases expression | 2 |
| Aflatoxin B1 | affects expression, decreases expression, decreases methylation | 2 |
| aristolochic acid I | decreases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| alpha-pinene | affects cotreatment, increases oxidation, increases abundance | 1 |
| bisphenol A | increases expression | 1 |
| arsenite | affects expression | 1 |
| cobaltous chloride | decreases expression | 1 |
| perfluorooctanoic acid | decreases expression | 1 |
| potassium chromate(VI) | affects cotreatment, decreases expression | 1 |
| methacrylaldehyde | affects cotreatment, increases oxidation, increases abundance | 1 |
| epigallocatechin gallate | affects cotreatment, decreases expression | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| 2,3,5-(triglutathion-S-yl)hydroquinone | increases ADP-ribosylation | 1 |
| perfluoro-n-nonanoic acid | decreases expression | 1 |
| perfluorohexanesulfonic acid | decreases expression | 1 |
| torcetrapib | increases expression | 1 |
| bisphenol AF | increases expression | 1 |
| Resveratrol | affects cotreatment, increases expression | 1 |
| Acrolein | increases oxidation, increases abundance, affects cotreatment | 1 |
| Air Pollutants | increases oxidation, affects cotreatment, increases abundance | 1 |
| Atrazine | decreases expression | 1 |
| Cannabidiol | decreases expression | 1 |
| Clozapine | increases expression | 1 |
ChEMBL screening assays
1 unique, capped per target: 1 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL5652449 | Binding | Binding affinity to human SLC25A13 incubated for 45 mins by Kinobead based pull down assay | NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem |
Cellosaurus cell lines
7 cell lines: 4 cancer cell line, 3 transformed cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_B2FN | Abcam HeLa SLC25A13 KO | Cancer cell line | Female |
| CVCL_BW47 | GM23989 | Transformed cell line | Male |
| CVCL_D4JG | HCT116-SLC25A13-KO-c2 | Cancer cell line | Male |
| CVCL_D4JH | HCT116-SLC25A13-KO-c8 | Cancer cell line | Male |
| CVCL_D9RR | Ubigene HEK293 SLC25A13 KO | Transformed cell line | Female |
| CVCL_RU03 | GM26185 | Transformed cell line | Male |
| CVCL_TM12 | HAP1 SLC25A13 (-) | Cancer cell line | Male |
Clinical trials (associated diseases)
11 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00718627 | PHASE2 | COMPLETED | Human Heterologous Liver Cells for Infusion in Children With Urea Cycle Disorders |
| NCT05687474 | Not specified | COMPLETED | Baby Detect : Genomic Newborn Screening |
| NCT06895746 | Not specified | ACTIVE_NOT_RECRUITING | Multi-omics Study in Citrin Deficiency |
| NCT07055269 | Not specified | ACTIVE_NOT_RECRUITING | Liver Metabolic Functions in Patients With Citrin Deficiency and Healthy Subjects |
| NCT01421888 | Not specified | TERMINATED | The NIH UNI Study: Urea Cycle Disorders, Nutrition and Immunity |
| NCT01610089 | Not specified | COMPLETED | Nitric Oxide Flux and Ureagenesis in Argininosuccinate Synthetase Deficiency (ASSD)(Citrullinemia I) |
| NCT04612764 | Not specified | ACTIVE_NOT_RECRUITING | Liver Disease in Urea Cycle Disorders |
| NCT04908319 | Not specified | RECRUITING | Hepatic Histopathology in Urea Cycle Disorders |
| NCT05910151 | Not specified | UNKNOWN | Selective Screening of Children for Hereditary Metabolic Diseases by Tandem Mass Spectrometry in Kazakhstan |
| NCT04340856 | Not specified | COMPLETED | Retrospective, Uncontrolled Cohort Study on the Therapy of Chronic Megalon |
| NCT07470892 | Not specified | NOT_YET_RECRUITING | Preoperative Fish Oil PN and Prognosis After Constipation Surgery |
Related Atlas pages
- Associated diseases: citrullinemia, type II, adult-onset, neonatal intrahepatic cholestasis due to citrin deficiency
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): adult-onset citrullinemia type I, citrin deficiency, citrullinemia, citrullinemia type I, citrullinemia type II, citrullinemia, type II, adult-onset, megacolon, neonatal intrahepatic cholestasis due to citrin deficiency