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CARS (cysteinyj-tRNA synthetase)

Written2003-08Jean-Loup Huret, Sylvie Senon
Genetics, Dept Medical Information, University of Poitiers, CHU Poitiers Hospital, F-86021 Poitiers, France

(Note : for Links provided by Atlas : click)

Identity

Alias_namescytoplasmic
Alias_symbol (synonym)CARS1
Other aliascysteine-tRNA ligase
cysteinease-translase
HGNC (Hugo) CARS
LocusID (NCBI) 833
Atlas_Id 484
Location 11p15.4  [Link to chromosome band 11p15]
Location_base_pair Starts at 3000922 and ends at 3057451 bp from pter ( according to hg19-Feb_2009)  [Mapping CARS.png]
Local_order 700 kb telomeric to NUP98
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
ALK (2p23.2) / CARS (11p15.4)CARS (11p15.4) / ALK (2p23.2)CARS (11p15.4) / OSBPL5 (11p15.4)
GRAMD1A (19q13.11) / CARS (11p15.4)MCM3 (6p12.2) / CARS (11p15.4)MIR5095 (1p32.3) / CARS (11p15.4)
NAP1L4 (11p15.4) / CARS (11p15.4)

DNA/RNA

Description The gene spans 57 kb; 22 exons; 2,5 kb cDNA
Transcription alternate splicing

Protein

Description 748 amino acids, 85 kDa. Forms homodimers
Localisation cytoplasmic

Implicated in

Note
  
Entity Inflammatory myofibroblastic tumors with a complex t(2;11)(p23;p15)
Disease rare soft tissue tumour found in children and young adults
Prognosis good prognosis
Hybrid/Mutated Gene 5' CARS - 3' ALK
Abnormal Protein N-term CARS (606 amino acids) fused to the usual 562 C-term amino acids of ALK
  

Bibliography

Identification of novel fusion partners of ALK, the anaplastic lymphoma kinase, in anaplastic large-cell lymphoma and inflammatory myofibroblastic tumor.
Cools J, Wlodarska I, Somers R, Mentens N, Pedeutour F, Maes B, De Wolf-Peeters C, Pauwels P, Hagemeijer A, Marynen P
Genes, chromosomes & cancer. 2002 ; 34 (4) : 354-362.
PMID 12112524
 

Citation

This paper should be referenced as such :
Huret, JL ; Senon, S
CARS (cysteinyj-tRNA synthetase)
Atlas Genet Cytogenet Oncol Haematol. 2003;7(4):221-221.
Free journal version : [ pdf ]   [ DOI ]
On line version : http://AtlasGeneticsOncology.org/Genes/CARSID484.html


Other Leukemias implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(8;11)(p11;p15) NUP98/WHSC1L1


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 3 ]
  Soft Tissues: Inflammatory myofibroblastic tumor
Soft tissue tumors: an overview
Soft Tissues: Inflammatory myofibroblastic tumor with t(2;11)(p23;p15) CARS/ALK


External links

Nomenclature
HGNC (Hugo)CARS   1493
Cards
AtlasCARSID484
Entrez_Gene (NCBI)CARS  833  cysteinyl-tRNA synthetase
AliasesCARS1; CYSRS; MGC:11246
GeneCards (Weizmann)CARS
Ensembl hg19 (Hinxton)ENSG00000110619 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000110619 [Gene_View]  chr11:3000922-3057451 [Contig_View]  CARS [Vega]
ICGC DataPortalENSG00000110619
TCGA cBioPortalCARS
AceView (NCBI)CARS
Genatlas (Paris)CARS
WikiGenes833
SOURCE (Princeton)CARS
Genetics Home Reference (NIH)CARS
Genomic and cartography
GoldenPath hg38 (UCSC)CARS  -     chr11:3000922-3057451 -  11p15.4   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)CARS  -     11p15.4   [Description]    (hg19-Feb_2009)
EnsemblCARS - 11p15.4 [CytoView hg19]  CARS - 11p15.4 [CytoView hg38]
Mapping of homologs : NCBICARS [Mapview hg19]  CARS [Mapview hg38]
OMIM123859   
Gene and transcription
Genbank (Entrez)AB208814 AF288206 AF288207 AI432096 AI608729
RefSeq transcript (Entrez)NM_001014437 NM_001014438 NM_001194997 NM_001751 NM_139273
RefSeq genomic (Entrez)NC_000011 NC_018922 NT_187585
Consensus coding sequences : CCDS (NCBI)CARS
Cluster EST : UnigeneHs.274873 [ NCBI ]
CGAP (NCI)Hs.274873
Alternative Splicing GalleryENSG00000110619
Gene ExpressionCARS [ NCBI-GEO ]   CARS [ EBI - ARRAY_EXPRESS ]   CARS [ SEEK ]   CARS [ MEM ]
Gene Expression Viewer (FireBrowse)CARS [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)833
GTEX Portal (Tissue expression)CARS
Human Protein AtlasENSG00000110619-CARS [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP49589   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP49589  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP49589
Splice isoforms : SwissVarP49589
Catalytic activity : Enzyme6.1.1.16 [ Enzyme-Expasy ]   6.1.1.166.1.1.16 [ IntEnz-EBI ]   6.1.1.16 [ BRENDA ]   6.1.1.16 [ KEGG ]   
PhosPhoSitePlusP49589
Domains : Interpro (EBI)Cys-tRNA-ligase    Cys-tRNA/MSH_ligase    Rossmann-like_a/b/a_fold    tRNA-synt_1_cat_dom    tRNAsynth_Ia_anticodon-bd   
Domain families : Pfam (Sanger)tRNA-synt_1e (PF01406)   
Domain families : Pfam (NCBI)pfam01406   
Conserved Domain (NCBI)CARS
DMDM Disease mutations833
Blocks (Seattle)CARS
SuperfamilyP49589
Human Protein Atlas [tissue]ENSG00000110619-CARS [tissue]
Peptide AtlasP49589
HPRD00464
IPIIPI00556365   IPI00939491   IPI00556541   IPI00745398   IPI00909763   IPI00027443   IPI00789371   IPI00983051   IPI00980132   
Protein Interaction databases
DIP (DOE-UCLA)P49589
IntAct (EBI)P49589
FunCoupENSG00000110619
BioGRIDCARS
STRING (EMBL)CARS
ZODIACCARS
Ontologies - Pathways
QuickGOP49589
Ontology : AmiGOtRNA binding  tRNA binding  cysteine-tRNA ligase activity  cysteine-tRNA ligase activity  protein binding  ATP binding  cytoplasm  cytosol  cytosol  tRNA aminoacylation for protein translation  cysteinyl-tRNA aminoacylation  protein homodimerization activity  metal ion binding  
Ontology : EGO-EBItRNA binding  tRNA binding  cysteine-tRNA ligase activity  cysteine-tRNA ligase activity  protein binding  ATP binding  cytoplasm  cytosol  cytosol  tRNA aminoacylation for protein translation  cysteinyl-tRNA aminoacylation  protein homodimerization activity  metal ion binding  
Pathways : KEGGAminoacyl-tRNA biosynthesis   
REACTOMEP49589 [protein]
REACTOME PathwaysR-HSA-379716 [pathway]   
NDEx NetworkCARS
Atlas of Cancer Signalling NetworkCARS
Wikipedia pathwaysCARS
Orthology - Evolution
OrthoDB833
GeneTree (enSembl)ENSG00000110619
Phylogenetic Trees/Animal Genes : TreeFamCARS
HOVERGENP49589
HOGENOMP49589
Homologs : HomoloGeneCARS
Homology/Alignments : Family Browser (UCSC)CARS
Gene fusions - Rearrangements
Fusion : MitelmanCARS/ALK [11p15.4/2p23.2]  
Fusion : MitelmanCARS/OSBPL5 [11p15.4/11p15.4]  [t(11;11)(p15;p15)]  
Fusion : MitelmanNAP1L4/CARS [11p15.4/11p15.4]  [t(11;11)(p15;p15)]  
Fusion : COSMICCARS [ALK]  -  2p23.2 [437]  [fusion_438]  [fusion_753]  
Fusion: TCGA_MDACCCARS 11p15.4 OSBPL5 11p15.4 LUSC
Fusion: TCGA_MDACCNAP1L4 11p15.4 CARS 11p15.4 BRCA
Tumor Fusion PortalCARS
Fusion : TICdbCARS [11p15.4]  -  ALK [2p23.2]
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCARS [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CARS
dbVarCARS
ClinVarCARS
1000_GenomesCARS 
Exome Variant ServerCARS
ExAC (Exome Aggregation Consortium)ENSG00000110619
GNOMAD BrowserENSG00000110619
Genetic variants : HAPMAP833
Genomic Variants (DGV)CARS [DGVbeta]
DECIPHERCARS [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCARS 
Mutations
ICGC Data PortalCARS 
TCGA Data PortalCARS 
Broad Tumor PortalCARS
OASIS PortalCARS [ Somatic mutations - Copy number]
Cancer Gene: CensusCARS 
Somatic Mutations in Cancer : COSMICCARS  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCARS
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CARS
DgiDB (Drug Gene Interaction Database)CARS
DoCM (Curated mutations)CARS (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CARS (select a term)
intoGenCARS
NCG5 (London)CARS
Cancer3DCARS(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM123859   
Orphanet18017   
DisGeNETCARS
MedgenCARS
Genetic Testing Registry CARS
NextProtP49589 [Medical]
TSGene833
GENETestsCARS
Target ValidationCARS
Huge Navigator CARS [HugePedia]
snp3D : Map Gene to Disease833
BioCentury BCIQCARS
ClinGenCARS
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD833
Chemical/Pharm GKB GenePA26079
Clinical trialCARS
Miscellaneous
canSAR (ICR)CARS (select the gene name)
Probes
Litterature
PubMed30 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCARS
EVEXCARS
GoPubMedCARS
iHOPCARS
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 14:45:54 CET 2017

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jlhuret@AtlasGeneticsOncology.org.