Gene Gene information from NCBI Gene database.
Entrez ID 23438
Gene name Histidyl-tRNA synthetase 2, mitochondrial
Gene symbol HARS2
Synonyms (NCBI Gene)
HARSLHARSRHO3HisRSPRLTS2
Chromosome 5
Chromosome location 5q31.3
Summary Aminoacyl-tRNA synthetases are a class of enzymes that charge tRNAs with their cognate amino acids. The protein encoded by this gene is an enzyme belonging to the class II family of aminoacyl-tRNA synthetases. Functioning in the synthesis of histidyl-tran
SNPs SNP information provided by dbSNP.
11
SNP ID Visualize variation Clinical significance Consequence
rs61736946 G>C Benign, conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant
rs140540222 C>T Uncertain-significance, likely-pathogenic Missense variant, coding sequence variant, intron variant, 5 prime UTR variant
rs200089613 G>A,T Likely-benign, likely-pathogenic Missense variant, coding sequence variant
rs376177973 G>A,T Likely-pathogenic Coding sequence variant, missense variant
rs397515410 C>G Pathogenic-likely-pathogenic Coding sequence variant, missense variant, 5 prime UTR variant
miRNA miRNA information provided by mirtarbase database.
240
miRTarBase ID miRNA Experiments Reference
MIRT001459 hsa-miR-16-5p pSILAC 18668040
MIRT001459 hsa-miR-16-5p Proteomics;Other 18668040
MIRT042251 hsa-miR-484 CLASH 23622248
MIRT1040804 hsa-miR-1225-5p CLIP-seq
MIRT1040805 hsa-miR-1276 CLIP-seq
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
24
GO ID Ontology Definition Evidence Reference
GO:0000166 Function Nucleotide binding IEA
GO:0003723 Function RNA binding HDA 22681889
GO:0003723 Function RNA binding IBA
GO:0004812 Function Aminoacyl-tRNA ligase activity IEA
GO:0004821 Function Histidine-tRNA ligase activity IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
600783 4817 ENSG00000112855
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P49590
Protein name Histidine--tRNA ligase, mitochondrial (EC 6.1.1.21) (Histidine--tRNA ligase-like) (Histidyl-tRNA synthetase) (HisRS)
Protein function Mitochondrial aminoacyl-tRNA synthetase that catalyzes the ATP-dependent ligation of histidine to the 3'-end of its cognate tRNA, via the formation of an aminoacyl-adenylate intermediate (His-AMP).
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF13393 tRNA-synt_His 62 390 Histidyl-tRNA synthetase Domain
PF03129 HGTP_anticodon 411 502 Anticodon binding domain Domain
Tissue specificity TISSUE SPECIFICITY: A high level expression is seen in the heart, kidney and skeletal muscle while a lower level expression is seen in the brain and liver.
Sequence
Sequence length 506
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Aminoacyl-tRNA biosynthesis   Mitochondrial tRNA aminoacylation
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
Gastric cancer Likely pathogenic; Pathogenic rs376181876 RCV005928318
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Perrault syndrome Likely pathogenic; Pathogenic rs376177973, rs397515410 RCV002517027
RCV002513308
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Perrault syndrome 2 Likely pathogenic; Pathogenic rs2149852789, rs748402163, rs376181876, rs376177973, rs563477361, rs397515410, rs1562047621, rs754069818, rs778499309, rs1229581230 RCV001822945
RCV001822946
RCV004808536
RCV000206915
RCV003156714
RCV000032820
RCV000782170
RCV000782172
RCV000782171
RCV001261943
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Sensorineural hearing loss disorder Likely pathogenic rs1581536078, rs1581550832 RCV000853541
RCV000853539
★★★★☆
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
GONADAL DYSGENESIS XX TYPE DEAFNESS Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
HARS2-related disorder Likely benign; Benign; Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
PERRAULT SYNDROME 1 Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
PERRAULT SYNDROME 3 Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References Evidence Score
Deafness Associate 31819004, 33228777
★☆☆☆☆
Found in Text Mining only
Genetic Diseases Inborn Associate 28178980
★☆☆☆☆
Found in Text Mining only
Glioblastoma Associate 26264438
★☆☆☆☆
Found in Text Mining only
Gonadal dysgenesis XX type deafness Associate 23541340, 26657938, 27087618, 31827252, 33228777
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Hearing Loss Associate 31827252
★☆☆☆☆
Found in Text Mining only
Hearing Loss Sensorineural Associate 31827252, 33228777
★☆☆☆☆
Found in Text Mining only
Lung Diseases Interstitial Associate 17665459
★☆☆☆☆
Found in Text Mining only
Mitochondrial Diseases Associate 31819004
★☆☆☆☆
Found in Text Mining only
Ovarian Diseases Associate 33228777
★☆☆☆☆
Found in Text Mining only
Pathological Conditions Anatomical Associate 31827252
★☆☆☆☆
Found in Text Mining only