Gene Gene information from NCBI Gene database.
Entrez ID 2617
Gene name Glycyl-tRNA synthetase 1
Gene symbol GARS1
Synonyms (NCBI Gene)
CMT2DDSMAVGARSGlyRSHMN5HMN5AHMND5SMAD1SMAJI
Chromosome 7
Chromosome location 7p14.3
Summary This gene encodes glycyl-tRNA synthetase, one of the aminoacyl-tRNA synthetases that charge tRNAs with their cognate amino acids. The encoded enzyme is an (alpha)2 dimer which belongs to the class II family of tRNA synthetases. It has been shown to be a t
SNPs SNP information provided by dbSNP.
32
SNP ID Visualize variation Clinical significance Consequence
rs77518956 G>A Uncertain-significance, conflicting-interpretations-of-pathogenicity Missense variant, coding sequence variant
rs137852643 G>C Uncertain-significance, pathogenic, likely-pathogenic Missense variant, coding sequence variant
rs137852644 T>C Uncertain-significance, pathogenic Missense variant, coding sequence variant
rs137852645 A>G Uncertain-significance, pathogenic Missense variant, coding sequence variant
rs137852646 G>A,C Uncertain-significance, pathogenic Missense variant, coding sequence variant
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
38
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0004081 Function Bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity IDA 19710017
GO:0004812 Function Aminoacyl-tRNA ligase activity IEA
GO:0004820 Function Glycine-tRNA ligase activity IBA
GO:0004820 Function Glycine-tRNA ligase activity IDA 17544401, 17545306, 19710017
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
600287 4162 ENSG00000106105
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P41250
Protein name Glycine--tRNA ligase (EC 6.1.1.14) (Diadenosine tetraphosphate synthetase) (Ap4A synthetase) (EC 2.7.7.-) (Glycyl-tRNA synthetase) (GlyRS) (Glycyl-tRNA synthetase 1)
Protein function Catalyzes the ATP-dependent ligation of glycine to the 3'-end of its cognate tRNA, via the formation of an aminoacyl-adenylate intermediate (Gly-AMP) (PubMed:17544401, PubMed:24898252, PubMed:28675565). Also produces diadenosine tetraphosphate (
PDB 2PME , 2PMF , 2Q5H , 2Q5I , 2ZT5 , 2ZT6 , 2ZT7 , 2ZT8 , 2ZXF , 4KQE , 4KR2 , 4KR3 , 4QEI , 5E6M
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00458 WHEP-TRS 67 117 WHEP-TRS domain Domain
PF00587 tRNA-synt_2b 291 592 tRNA synthetase class II core domain (G, H, P, S and T) Domain
PF03129 HGTP_anticodon 615 709 Anticodon binding domain Domain
Tissue specificity TISSUE SPECIFICITY: Widely expressed, including in brain and spinal cord. {ECO:0000269|PubMed:12690580}.; TISSUE SPECIFICITY: [Isoform 2]: Expressed in brain, spinal cord, muscle, heart and spleen. {ECO:0000269|PubMed:26327585}.; TISSUE SPECIFICITY: [Isof
Sequence
Sequence length 739
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Aminoacyl-tRNA biosynthesis   Cytosolic tRNA aminoacylation
Mitochondrial tRNA aminoacylation
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
49
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
Charcot-Marie-Tooth disease Likely pathogenic; Pathogenic rs137852643, rs137852644, rs1060502838, rs1554338260, rs1554337974, rs1554337369 RCV000789142
RCV000857175
RCV000789777
RCV000789773
RCV000789776
View all (1 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth disease type 2 Likely pathogenic; Pathogenic rs2128134030, rs2128134025, rs137852643, rs137852646, rs2534306033, rs1060502838, rs1060502839, rs1064795123, rs1554338260, rs1554337974, rs1554338262, rs1554338641, rs1554337369, rs1584034430 RCV005095142
RCV003032499
RCV000692132
RCV002228024
RCV003581439
View all (11 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth disease type 2D Pathogenic; Likely pathogenic rs2128134025, rs863224873, rs137852643, rs137852644, rs137852646, rs1060502838, rs1554338260, rs1554338262, rs1584034430, rs1554337974 RCV001838853
RCV000195583
RCV000009782
RCV003332077
RCV001542258
View all (5 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Distal spinal muscular atrophy Pathogenic rs137852646, rs1060502838, rs1554338260 RCV000790258
RCV000790256
RCV000790255
★★★★☆
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
Acute myeloid leukemia Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTOSOMAL DOMINANT CHARCOT-MARIE-TOOTH DISEASE TYPE 2D Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTOSOMAL DOMINANT DISTAL HEREDITARY MOTOR NEUROPATHY Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Benign; Likely benign 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
Adult type dermatomyositis Dermatomyositis BEFREE 7961834
★☆☆☆☆
Found in Text Mining only
Agenesis of corpus callosum Agenesis Of Corpus Callosum BEFREE 11231025
★☆☆☆☆
Found in Text Mining only
Amyotrophic Lateral Sclerosis Amyotrophic Lateral Sclerosis BEFREE 21414903, 22072396
★☆☆☆☆
Found in Text Mining only
Amyotrophy, monomelic Monomelic Amyotrophy BEFREE 19412816
★☆☆☆☆
Found in Text Mining only
Atrophy Atrophy Pubtator 22462675 Associate
★☆☆☆☆
Found in Text Mining only
Autosomal dominant Charcot-Marie-Tooth disease type 2D Charcot-Marie-Tooth Disease BEFREE 28594869
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Breast Carcinoma Breast Carcinoma BEFREE 21527583, 26134759
★☆☆☆☆
Found in Text Mining only
Charcot-Marie-Tooth Disease Charcot-Marie-Tooth Disease LHGDN 12690580
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth Disease Charcot-Marie-Tooth Disease BEFREE 16769947, 16982418, 17545306, 17595294, 17663003, 19329989, 19470612, 21737751, 22144914, 24669931, 24807208, 25972375, 26138142, 26244500, 27008886
View all (9 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Charcot-Marie-Tooth disease, Type 2D Charcot-Marie-Tooth disease BEFREE 12690580, 16982418, 17035524, 22144914, 25168514, 26000875, 28835631, 29520015, 29520219, 31173493, 31557132
★★☆☆☆
Found in Text Mining + Unknown/Other Associations