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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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VARS1
valyl-tRNA synthetase 1
Chromosome 6 Β· 6p21.33
NCBI Gene: 7407Ensembl: ENSG00000096171.14HGNC: HGNC:12651UniProt: A0A024RCN6
166PubMed Papers
1Diseases
0Drugs
35Pathogenic Variants
FUNCTIONAL ROLE
Hub Gene
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
valine-tRNA ligase activityprotein bindingcytosolvalyl-tRNA aminoacylationNeurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
✦AI Summary

VARS1 (valyl-tRNA synthetase 1) catalyzes the aminoacylation of valine to its cognate tRNA, a critical step in protein translation occurring in the cytosol 1. The enzyme contains catalytic and aminoacylation domains essential for ligand recognition, substrate specificity, and tRNA interaction 1. Biallelic VARS1 variants cause autosomal recessive neurodevelopmental disorder characterized by progressive microcephaly, seizures, intellectual disability, and cortical atrophy 1. Disease-causing variants include truncating mutations causing loss-of-function and missense variants in catalytic domains that disrupt protein dynamics and RNA-interaction surfaces 1. Additionally, VARS1 variants have been associated with fetal akinesia deformation sequence and placental pathology 2. Beyond its housekeeping translation function, VARS1 exhibits disease-specific roles in cancer biology. VARS1 is overexpressed in aggressive hepatocellular carcinoma and promotes tumor aggressiveness through MAGI1 downregulation 3. In melanoma, VARS1 serves as a hub gene in M2-like tumor-associated macrophage modules, promoting cancer cell migration/invasion and M2 macrophage polarization while suppressing CD8 T cell infiltration and immunotherapy response 4. VARS1 also represents a potential therapeutic target in ankylosing spondylitis 5 and was identified as a papillary thyroid carcinoma risk-associated gene 6.

Sources cited
1
VARS1 catalyzes valine aminoacylation to tRNA; biallelic variants cause neurodevelopmental disorder with microcephaly, seizures, and intellectual disability through disruption of catalytic domains and tRNA interaction
PMID: 41672381
2
VARS1 is overexpressed in aggressive hepatocellular carcinoma and promotes tumor aggressiveness through MAGI1 downregulation
PMID: 39810176
3
VARS1 is a hub gene in M2-like tumor-associated macrophage modules in melanoma; promotes cancer cell migration/invasion and M2 polarization while suppressing CD8 T cell infiltration and anti-PD-1 immunotherapy response
PMID: 36303162
4
VARS1 variants are associated with fetal akinesia deformation sequence and massive perivillous fibrin deposition
PMID: 34636181
5
VARS1 identified as potential therapeutic target or biomarker in ankylosing spondylitis
PMID: 38835753
6
VARS1 associated with papillary thyroid carcinoma risk based on rare variant analysis
PMID: 37686511
Disease Associationsβ“˜1
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophyUniProt
Pathogenic Variants35
NM_006295.3(VARS1):c.2370G>A (p.Trp790Ter)Pathogenic
not provided|Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜…β˜†β˜†2024β†’ Residue 790
NM_006295.3(VARS1):c.3355C>T (p.Arg1119Cys)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜…β˜†β˜†2024β†’ Residue 1119
NM_006295.3(VARS1):c.614_616del (p.Gly205del)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜…β˜†β˜†2024β†’ Residue 205
NM_006295.3(VARS1):c.3622C>T (p.Arg1208Ter)Pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜…β˜†β˜†2023β†’ Residue 1208
NM_006295.3(VARS1):c.3173G>A (p.Arg1058Gln)Likely pathogenic
Abnormal brain morphology|Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜…β˜†β˜†2021β†’ Residue 1058
NM_006295.3(VARS1):c.3463C>T (p.Gln1155Ter)Pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2026β†’ Residue 1155
NM_006295.3(VARS1):c.3307G>T (p.Glu1103Ter)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2026β†’ Residue 1103
NM_006295.3(VARS1):c.522+1G>ALikely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2025
NM_006295.3(VARS1):c.2954G>A (p.Arg985His)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 985
NM_006295.3(VARS1):c.787-2A>GLikely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2024
NM_006295.3(VARS1):c.1137del (p.Gly380fs)Pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2024β†’ Residue 380
NM_006295.3(VARS1):c.871+1G>CPathogenic
not provided
β˜…β˜†β˜†β˜†2023
NM_006295.3(VARS1):c.1603del (p.Thr535fs)Pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2023β†’ Residue 535
NM_006295.3(VARS1):c.3203C>A (p.Thr1068Lys)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2023β†’ Residue 1068
NM_006295.3(VARS1):c.2825G>A (p.Arg942Gln)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy|not provided
β˜…β˜†β˜†β˜†2022β†’ Residue 942
NM_006295.3(VARS1):c.1251G>A (p.Trp417Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2022β†’ Residue 417
NM_006295.3(VARS1):c.662-2A>CLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2022
NM_006295.3(VARS1):c.1852del (p.Arg618fs)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2021β†’ Residue 618
NM_006295.3(VARS1):c.2821_2825del (p.Asn941fs)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2021β†’ Residue 941
NM_006295.3(VARS1):c.3115C>T (p.Gln1039Ter)Likely pathogenic
Neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
β˜…β˜†β˜†β˜†2020β†’ Residue 1039
View on ClinVar β†—
Related Genes
EEF1B2Protein interaction100%RPF2Protein interaction100%EEF1A1Protein interaction99%VWA7Protein interaction97%POLR1BProtein interaction94%YARS1Protein interaction94%
Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network
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VARS1EEF1B2RPF2EEF1A1VWA7POLR1BYARS1
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt P26640
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.66LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.56 [0.47–0.66]
RankingsWhere VARS1 stands among ~20K protein-coding genes
  • #2,701of 20,598
    Most Researched166 Β· top quartile
  • #1,669of 5,498
    Most Pathogenic Variants35
  • #4,859of 17,882
    Most Constrained (LOEUF)0.66
Genes detectedVARS1
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Quantitative proteomic analysis unveils a critical role of VARS1 in hepatocellular carcinoma aggressiveness through the modulation of MAGI1 expression.
PMID: 39810176
Mol Cancer Β· 2025
1.00
2
Genetic associations in ankylosing spondylitis: circulating proteins as drug targets and biomarkers.
PMID: 38835753
Front Immunol Β· 2024
0.90
3
Novel VARS1 variants define new clinical and molecular subtypes of a rare neurodevelopmental syndrome.
PMID: 41672381
Biochim Biophys Acta Mol Basis Dis Β· 2026
0.80
4
Transcriptome-based network analysis related to M2-like tumor-associated macrophage infiltration identified VARS1 as a potential target for improving melanoma immunotherapy efficacy.
PMID: 36303162
J Transl Med Β· 2022
0.70
5
Whole Exome-Wide Association Identifies Rare Variants in
PMID: 37686511
Cancers (Basel) Β· 2023
0.60