Gene Gene information from NCBI Gene database.
Entrez ID 10560
Gene name Solute carrier family 19 member 2
Gene symbol SLC19A2
Synonyms (NCBI Gene)
TC1THMD1THT1THTR1TRMA
Chromosome 1
Chromosome location 1q24.2
Summary This gene encodes the thiamin transporter protein. Mutations in this gene cause thiamin-responsive megaloblastic anemia syndrome (TRMA), which is an autosomal recessive disorder characterized by diabetes mellitus, megaloblastic anemia and sensorineural de
SNPs SNP information provided by dbSNP.
16
SNP ID Visualize variation Clinical significance Consequence
rs28937595 C>A,T Pathogenic Coding sequence variant, intron variant, missense variant
rs74315373 G>A Pathogenic Stop gained, coding sequence variant, intron variant
rs74315374 C>G,T Pathogenic Missense variant, stop gained, coding sequence variant, intron variant
rs74315375 C>T Pathogenic Stop gained, coding sequence variant
rs121908540 G>A Pathogenic Missense variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
382
miRTarBase ID miRNA Experiments Reference
MIRT023284 hsa-miR-122-5p Microarray 17612493
MIRT024357 hsa-miR-215-5p Microarray 19074876
MIRT026524 hsa-miR-192-5p Microarray 19074876
MIRT027662 hsa-miR-98-5p Microarray 19088304
MIRT029562 hsa-miR-26b-5p Sequencing 20371350
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
SP1 Unknown 24525018
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
29
GO ID Ontology Definition Evidence Reference
GO:0005515 Function Protein binding IPI 21836059, 33961781
GO:0005886 Component Plasma membrane IBA
GO:0005886 Component Plasma membrane IDA 21836059
GO:0005886 Component Plasma membrane IEA
GO:0005886 Component Plasma membrane TAS
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
603941 10938 ENSG00000117479
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
O60779
Protein name Thiamine transporter 1 (ThTr-1) (ThTr1) (Solute carrier family 19 member 2) (Thiamine carrier 1) (TC1)
Protein function High-affinity transporter for the intake of thiamine (PubMed:10391222, PubMed:10542220, PubMed:21836059, PubMed:33008889, PubMed:35512554, PubMed:35724964). Mediates H(+)-dependent pyridoxine transport (PubMed:33008889, PubMed:35512554, PubMed:3
PDB 8Z7Z , 8Z80
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01770 Folate_carrier 28 458 Reduced folate carrier Family
Tissue specificity TISSUE SPECIFICITY: Ubiquitous; most abundant in skeletal and cardiac muscle. Medium expression in placenta, heart, liver and kidney, low in lung. {ECO:0000269|PubMed:10391222, ECO:0000269|PubMed:10542220}.
Sequence
Sequence length 497
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Vitamin digestion and absorption   Vitamin B1 (thiamin) metabolism
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
31
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Ear malformation Pathogenic rs1658342879 RCV001814323
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Lung cancer Pathogenic rs768890368 RCV005930671
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Megaloblastic anemia, thiamine-responsive, with diabetes mellitus and sensorineural deafness Pathogenic; Likely pathogenic rs1658342879, rs768890368, rs778795434, rs74315373, rs1571537544, rs28937595, rs74315374, rs1571532822, rs1401027751, rs752104654, rs1571537879, rs74315375, rs867811009, rs371383730, rs1368720035
View all (7 more)
RCV001534618
RCV004596567
RCV005050645
RCV000006319
RCV000006320
View all (17 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Sensorineural hearing loss disorder Pathogenic rs1658539563 RCV005420512
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
ANEMIA, MEGALOBLASTIC Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ANGIOEDEMA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ATRIAL FIBRILLATION GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BLOOD COAGULATION DISEASE GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Activated Protein C Resistance Activated Protein C Resistance BEFREE 23188048
★☆☆☆☆
Found in Text Mining only
Alstrom Syndrome Alstrom syndrome Pubtator 28432734 Associate
★☆☆☆☆
Found in Text Mining only
Anemia Anemia Pubtator 23454484, 24072090 Associate
★☆☆☆☆
Found in Text Mining only
Anemia Anemia BEFREE 24072090, 28371426, 31095747, 31338833
★☆☆☆☆
Found in Text Mining only
Anemia Megaloblastic Megaloblastic anemia Pubtator 10978358, 17463047, 19643445, 28504500, 30833467, 31338833, 33571483, 33649974, 39467528 Associate
★☆☆☆☆
Found in Text Mining only
Anemia Megaloblastic Megaloblastic anemia Pubtator 9399900 Stimulate
★☆☆☆☆
Found in Text Mining only
Anemia Sideroblastic Sideroblastic anemia Pubtator 38360212 Associate
★☆☆☆☆
Found in Text Mining only
Anemia, Megaloblastic Anemia LHGDN 12065289, 14994241, 17463047, 17659067
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Anemia, Megaloblastic Anemia BEFREE 18614593, 22369132, 29969779
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Anemia, Megaloblastic Anemia HPO_DG
★★☆☆☆
Found in Text Mining + Unknown/Other Associations