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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
SLC19A3
solute carrier family 19 member 3
Chromosome 2 Β· 2q36.3
NCBI Gene: 80704Ensembl: ENSG00000135917.16HGNC: HGNC:16266UniProt: A0A2R8YHG5
61PubMed Papers
21Diseases
0Drugs
77Pathogenic Variants
FUNCTIONAL ROLE
Transporter
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
protein bindingthiamine transportpyridoxine transportthiamine transmembrane transporter activitybiotin-responsive basal ganglia diseaseThiamine-responsive encephalopathygenetic disorderLeigh syndrome
✦AI Summary

SLC19A3 encodes thiamine transporter 2 (hTHTR2), a plasma membrane protein that mediates high-affinity thiamine (vitamin B1) uptake via a proton antiport mechanism 1. The transporter also mediates H+-dependent pyridoxine (vitamin B6) transport but lacks folate transport activity 1. SLC19A3 contains 12 transmembrane domains and is widely expressed, with highest levels in placenta, kidney, and liver 2. The protein exhibits adipose tissue-specific expression patterns and is regulated during obesity and weight loss 3. Pathogenic variants in SLC19A3 cause thiamine metabolism dysfunction syndrome type 2, also known as biotin-thiamine-responsive basal ganglia disease (BTBGD), characterized by heterogeneous neurological presentations including classical childhood basal ganglia disease, early-infantile Leigh-like syndrome, and adult Wernicke's-like encephalopathy 4. These disorders are triggered by stressors such as fever or trauma and affect basal ganglia, cerebral cortex, thalamus, and periaqueductal regions 4. Treatment consists of lifelong thiamine supplementation alone or combined with biotin, with excellent survival outcomes (100% 3-year survival) when properly treated 5. SLC19A3 is also a target for drug interactions, with medications like fedratinib, amprolium, and hydroxychloroquine inhibiting transporter function 1.

Sources cited
1
SLC19A3 mediates high-affinity thiamine uptake via proton antiport mechanism and H+-dependent pyridoxine transport, and is inhibited by drugs like fedratinib
PMID: 39358356
2
SLC19A3 has 12 transmembrane domains and is widely expressed with highest levels in placenta, kidney, and liver
PMID: 11136550
3
SLC19A3 shows adipose tissue-specific expression patterns and is regulated during obesity and weight loss
PMID: 35127120
4
SLC19A3 mutations cause biotin-thiamine-responsive basal ganglia disease with heterogeneous neurological presentations triggered by stressors
PMID: 28962040
5
SLC19A3 defects show 100% 3-year survival with proper treatment, in contrast to other mitochondrial disorders
PMID: 35094435
Disease Associationsβ“˜21
biotin-responsive basal ganglia diseaseOpen Targets
0.82Strong
Thiamine-responsive encephalopathyOpen Targets
0.77Strong
genetic disorderOpen Targets
0.49Moderate
Leigh syndromeOpen Targets
0.37Weak
DystoniaOpen Targets
0.37Weak
Infantile spams - psychomotor retardation - progressive brain atrophy - basal ganglia diseaseOpen Targets
0.37Weak
infantile spams-psychomotor retardation-progressive brain atrophy-basal ganglia disease syndromeOpen Targets
0.37Weak
neurodegenerative diseaseOpen Targets
0.35Weak
peritonitisOpen Targets
0.30Weak
Spastic paraplegiaOpen Targets
0.12Weak
biliary tract diseaseOpen Targets
0.10Weak
esophageal adenocarcinomaOpen Targets
0.05Suggestive
Barrett's esophagusOpen Targets
0.05Suggestive
amyotrophic lateral sclerosisOpen Targets
0.04Suggestive
amyotrophic lateral sclerosis type 15Open Targets
0.04Suggestive
familial amyotrophic lateral sclerosisOpen Targets
0.04Suggestive
familial infantile bilateral striatal necrosisOpen Targets
0.04Suggestive
gastric cancerOpen Targets
0.04Suggestive
obesityOpen Targets
0.04Suggestive
Huntington diseaseOpen Targets
0.04Suggestive
Basal ganglia disease, biotin-thiamine responsiveUniProt
Pathogenic Variants77
NM_025243.4(SLC19A3):c.1172+1G>APathogenic
not provided|Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2026
NM_025243.4(SLC19A3):c.74dup (p.Ser26fs)Pathogenic
Biotin-responsive basal ganglia disease|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 26
NM_025243.4(SLC19A3):c.68G>T (p.Gly23Val)Pathogenic
Biotin-responsive basal ganglia disease|not provided|Inborn genetic diseases
β˜…β˜…β˜†β˜†2025β†’ Residue 23
NM_025243.4(SLC19A3):c.81_82dup (p.Met28fs)Pathogenic
Biotin-responsive basal ganglia disease|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 28
NM_025243.4(SLC19A3):c.337T>C (p.Tyr113His)Pathogenic
Biotin-responsive basal ganglia disease|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 113
NM_025243.4(SLC19A3):c.980-14A>GPathogenic
not provided|Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2025
NM_025243.4(SLC19A3):c.1079dup (p.Leu360fs)Pathogenic
Biotin-responsive basal ganglia disease|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 360
NM_025243.4(SLC19A3):c.597del (p.His200fs)Pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2025β†’ Residue 200
NM_025243.4(SLC19A3):c.1172+2T>GPathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2025
NM_025243.4(SLC19A3):c.1264A>G (p.Thr422Ala)Pathogenic
Biotin-responsive basal ganglia disease|not provided|Inborn genetic diseases|Thiamine metabolism dysfunction syndrome 2 (biotin/thiamine-responsive basal ganglia disease type)
β˜…β˜…β˜†β˜†2025β†’ Residue 422
NM_025243.4(SLC19A3):c.513C>A (p.Tyr171Ter)Pathogenic
Biotin-responsive basal ganglia disease|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 171
NM_025243.4(SLC19A3):c.895_925del (p.Val299fs)Pathogenic
not provided|Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2025β†’ Residue 299
NM_025243.4(SLC19A3):c.35G>A (p.Trp12Ter)Pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2025β†’ Residue 12
NM_025243.4(SLC19A3):c.597dup (p.His200fs)Pathogenic
Biotin-responsive basal ganglia disease|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 200
NM_025243.4(SLC19A3):c.854G>A (p.Trp285Ter)Pathogenic
Biotin-responsive basal ganglia disease|not provided|Inborn genetic diseases|SLC19A3-related disorder
β˜…β˜…β˜†β˜†2024β†’ Residue 285
NM_025243.4(SLC19A3):c.151-1G>CLikely pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2024
NM_025243.4(SLC19A3):c.36G>A (p.Trp12Ter)Pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2024β†’ Residue 12
NM_025243.4(SLC19A3):c.1A>C (p.Met1Leu)Likely pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2024β†’ Residue 1
NM_025243.4(SLC19A3):c.111del (p.Tyr38fs)Pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2024β†’ Residue 38
NM_025243.4(SLC19A3):c.623_626del (p.Lys208fs)Pathogenic
Biotin-responsive basal ganglia disease
β˜…β˜…β˜†β˜†2024β†’ Residue 208
View on ClinVar β†—
Related Genes
BTDProtein interaction73%SLC19A2Protein interaction67%TPK1Protein interaction66%SLC25A19Protein interaction58%GCShared pathway20%AFMShared pathway20%
Tissue Expression6 tissues
Liver
100%
Lung
22%
Ovary
6%
Brain
6%
Heart
5%
Bone Marrow
0%
Gene Interaction Network
Click a node to explore
SLC19A3BTDSLC19A2TPK1SLC25A19GCAFM
PROTEIN STRUCTURE
Preparing viewer…
PDB9G5K Β· 2.87 Γ… Β· EM
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.97LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.71 [0.53–0.97]
RankingsWhere SLC19A3 stands among ~20K protein-coding genes
  • #7,611of 20,598
    Most Researched61
  • #962of 5,498
    Most Pathogenic Variants77 Β· top quartile
  • #9,184of 17,882
    Most Constrained (LOEUF)0.97
Genes detectedSLC19A3
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Leigh Syndrome: A Study of 209 Patients at the Beijing Children's Hospital.
PMID: 35094435
Ann Neurol Β· 2022
1.00
2
SLC19A3 Gene Defects Sorting the Phenotype and Acronyms: Review.
PMID: 28962040
Neuropediatrics Β· 2018
0.90
3
Substrate transport and drug interaction of human thiamine transporters SLC19A2/A3.
PMID: 39738067
Nat Commun Β· 2024
0.80
4
Human adipose tissue gene expression of solute carrier family 19 member 3 (
PMID: 35127120
Obes Sci Pract Β· 2022
0.70
5
New perspective in diagnostics of mitochondrial disorders: two years' experience with whole-exome sequencing at a national paediatric centre.
PMID: 27290639
J Transl Med Β· 2016
0.60