Gene Gene information from NCBI Gene database.
Entrez ID 189
Gene name Alanine--glyoxylate aminotransferase
Gene symbol AGXT
Synonyms (NCBI Gene)
AGTAGT1AGXT1PH1SPATSPTSer-PyrATTLH6
Chromosome 2
Chromosome location 2q37.3
Summary This gene is expressed only in the liver and the encoded protein is localized mostly in the peroxisomes, where it is involved in glyoxylate detoxification. Mutations in this gene, some of which alter subcellular targetting, have been associated with type
SNPs SNP information provided by dbSNP.
174
SNP ID Visualize variation Clinical significance Consequence
rs34116584 C>A,G,T Likely-benign, likely-pathogenic, benign, uncertain-significance, conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant
rs61729604 G>A Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, missense variant
rs111742810 T>A Pathogenic Splice donor variant
rs111996685 G>A,C Pathogenic Splice donor variant
rs112673831 G>A,C,T Likely-pathogenic Splice acceptor variant
miRNA miRNA information provided by mirtarbase database.
21
miRTarBase ID miRNA Experiments Reference
MIRT459357 hsa-miR-6771-3p PAR-CLIP 23592263
MIRT459356 hsa-miR-6849-3p PAR-CLIP 23592263
MIRT459355 hsa-miR-3190-5p PAR-CLIP 23592263
MIRT459354 hsa-miR-4786-5p PAR-CLIP 23592263
MIRT459353 hsa-miR-3926 PAR-CLIP 23592263
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
35
GO ID Ontology Definition Evidence Reference
GO:0004760 Function L-serine-pyruvate transaminase activity IBA
GO:0004760 Function L-serine-pyruvate transaminase activity IDA 10347152
GO:0004760 Function L-serine-pyruvate transaminase activity IEA
GO:0005515 Function Protein binding IPI 15911627, 22529745, 32296183
GO:0005737 Component Cytoplasm IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
604285 341 ENSG00000172482
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P21549
Protein name Alanine--glyoxylate aminotransferase (AGT) (EC 2.6.1.44) (Serine--pyruvate aminotransferase) (SPT) (EC 2.6.1.51)
Protein function Peroxisomal aminotransferase that catalyzes the transamination of glyoxylate to glycine and contributes to the glyoxylate detoxification (PubMed:10960483, PubMed:12777626, PubMed:23229545, PubMed:24055001, PubMed:26149463). Also catalyzes the tr
PDB 1H0C , 1J04 , 2YOB , 3R9A , 4CBR , 4CBS , 4I8A , 4KXK , 4KYO , 5F9S , 5HHY , 5LUC , 5OFY , 5OG0 , 6RV0 , 6RV1 , 7NS7
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00266 Aminotran_5 23 376 Aminotransferase class-V Domain
Tissue specificity TISSUE SPECIFICITY: Liver.
Sequence
Sequence length 392
Interactions View interactions
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
14
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
Abnormality of metabolism/homeostasis Likely pathogenic; Pathogenic rs180177207 RCV001814082
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
AGXT-related disorder Pathogenic; Likely pathogenic rs180177201, rs180177197, rs180177286, rs121908525, rs121908529 RCV003415938
RCV003895168
RCV004755785
RCV004755796
RCV003407286
View all (1 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Alanine glyoxylate aminotransferase deficiency Pathogenic rs180177201 RCV003993816
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Cardiac arrhythmia Likely pathogenic rs180177272 RCV004539733
★★★★☆
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
HYPEROXALURIA, PRIMARY, TYPE I HPO
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
OLIGODENDROGLIOMA GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
PRIMARY HYPEROXALURIA TYPE 1 CTD, GenCC, Orphanet
CTD, GenCC, Orphanet
CTD, GenCC, Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Severe combined immunodeficiency, autosomal recessive, T cell-negative, B cell-negative, NK cell-negative, due to adenosine deaminase deficiency Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
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
ABLEPHARON-MACROSTOMIA SYNDROME Ablepharon macrostomia syndrome BEFREE 20570668
★☆☆☆☆
Found in Text Mining only
Achondroplasia Achondroplasia BEFREE 8961255
★☆☆☆☆
Found in Text Mining only
Acquired angioedema Angioedema BEFREE 28818177
★☆☆☆☆
Found in Text Mining only
Acromegaly Acromegaly BEFREE 20361261, 28712073
★☆☆☆☆
Found in Text Mining only
Acute Coronary Syndrome Coronary Syndrome BEFREE 20549134, 31195108
★☆☆☆☆
Found in Text Mining only
Acute Erythroblastic Leukemia Erythroblastic Leukemia BEFREE 17907103
★☆☆☆☆
Found in Text Mining only
Acute pancreatitis Pancreatitis BEFREE 24743610, 28270103
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 17299068
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 31823412
★☆☆☆☆
Found in Text Mining only
Adrenal Cortical Adenoma Adrenocortical adenoma BEFREE 7490136
★☆☆☆☆
Found in Text Mining only