Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LTC4S (leukotriene C4 synthase)

Identity

Other names-
HGNC (Hugo) LTC4S
LocusID (NCBI) 4056
Location 5q35.3
Location_base_pair Starts at 179220986 and ends at 179223513 bp from pter ( according to hg19-Feb_2009)
Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)LTC4S   6719
Cards
Entrez_Gene (NCBI)LTC4S  4056  leukotriene C4 synthase
GeneCards (Weizmann)LTC4S
Ensembl hg19 (Hinxton)ENSG00000213316 [Gene_View]  chr5:179220986-179223513 [Contig_View]  LTC4S [Vega]
Ensembl hg38 (Hinxton)ENSG00000213316 [Gene_View]  chr5:179220986-179223513 [Contig_View]  LTC4S [Vega]
ICGC DataPortalENSG00000213316
cBioPortalLTC4S
AceView (NCBI)LTC4S
Genatlas (Paris)LTC4S
WikiGenes4056
SOURCE (Princeton)LTC4S
Genomic and cartography
GoldenPath hg19 (UCSC)LTC4S  -     chr5:179220986-179223513 +  5q35.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)LTC4S  -     5q35.3   [Description]    (hg38-Dec_2013)
EnsemblLTC4S - 5q35.3 [CytoView hg19]  LTC4S - 5q35.3 [CytoView hg38]
Mapping of homologs : NCBILTC4S [Mapview hg19]  LTC4S [Mapview hg38]
OMIM246530   614037   
Gene and transcription
Genbank (Entrez)AI480325 AK312033 BC029498 BI597970 BI819419
RefSeq transcript (Entrez)NM_145867
RefSeq genomic (Entrez)AC_000137 NC_000005 NC_018916 NG_028161 NT_023133 NW_001838967 NW_004929325
Consensus coding sequences : CCDS (NCBI)LTC4S
Cluster EST : UnigeneHs.706741 [ NCBI ]
CGAP (NCI)Hs.706741
Alternative Splicing : Fast-db (Paris)GSHG0024536
Alternative Splicing GalleryENSG00000213316
Gene ExpressionLTC4S [ NCBI-GEO ]     LTC4S [ SEEK ]   LTC4S [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ16873 (Uniprot)
NextProtQ16873  [Medical]
With graphics : InterProQ16873
Splice isoforms : SwissVarQ16873 (Swissvar)
Catalytic activity : Enzyme4.4.1.20 [ Enzyme-Expasy ]   4.4.1.204.4.1.20 [ IntEnz-EBI ]   4.4.1.20 [ BRENDA ]   4.4.1.20 [ KEGG ]   
Domaine pattern : Prosite (Expaxy)FLAP_GST2_LTC4S (PS01297)   
Domains : Interpro (EBI)5_LipOase_AP    FLAP/GST2/LTC4S_CS    MAPEG-like_dom    Membr-assoc_MAPEG   
Related proteins : CluSTrQ16873
Domain families : Pfam (Sanger)MAPEG (PF01124)   
Domain families : Pfam (NCBI)pfam01124   
DMDM Disease mutations4056
Blocks (Seattle)Q16873
PDB (SRS)2PNO    2UUH    2UUI    3B29    3HKK    3LEO    3PCV    4J7T    4J7Y    4JC7    4JCZ    4JRZ   
PDB (PDBSum)2PNO    2UUH    2UUI    3B29    3HKK    3LEO    3PCV    4J7T    4J7Y    4JC7    4JCZ    4JRZ   
PDB (IMB)2PNO    2UUH    2UUI    3B29    3HKK    3LEO    3PCV    4J7T    4J7Y    4JC7    4JCZ    4JRZ   
PDB (RSDB)2PNO    2UUH    2UUI    3B29    3HKK    3LEO    3PCV    4J7T    4J7Y    4JC7    4JCZ    4JRZ   
Human Protein AtlasENSG00000213316
Peptide AtlasQ16873
HPRD02004
IPIIPI00004509   IPI00880205   IPI00967009   
Protein Interaction databases
DIP (DOE-UCLA)Q16873
IntAct (EBI)Q16873
FunCoupENSG00000213316
BioGRIDLTC4S
IntegromeDBLTC4S
STRING (EMBL)LTC4S
Ontologies - Pathways
QuickGOQ16873
Ontology : AmiGOglutathione transferase activity  leukotriene-C4 synthase activity  glutathione peroxidase activity  protein binding  nuclear envelope  nuclear envelope  nuclear outer membrane  endoplasmic reticulum  endoplasmic reticulum membrane  leukotriene metabolic process  leukotriene metabolic process  enzyme activator activity  lipid binding  integral component of membrane  arachidonic acid metabolic process  leukotriene biosynthetic process  lipoxygenase pathway  positive regulation of catalytic activity  intracellular membrane-bounded organelle  small molecule metabolic process  oxidation-reduction process  lipoxin metabolic process  
Ontology : EGO-EBIglutathione transferase activity  leukotriene-C4 synthase activity  glutathione peroxidase activity  protein binding  nuclear envelope  nuclear envelope  nuclear outer membrane  endoplasmic reticulum  endoplasmic reticulum membrane  leukotriene metabolic process  leukotriene metabolic process  enzyme activator activity  lipid binding  integral component of membrane  arachidonic acid metabolic process  leukotriene biosynthetic process  lipoxygenase pathway  positive regulation of catalytic activity  intracellular membrane-bounded organelle  small molecule metabolic process  oxidation-reduction process  lipoxin metabolic process  
Pathways : KEGGArachidonic acid metabolism   
Protein Interaction DatabaseLTC4S
DoCM (Curated mutations)LTC4S
Wikipedia pathwaysLTC4S
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerLTC4S [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LTC4S
dbVarLTC4S
ClinVarLTC4S
1000_GenomesLTC4S 
Exome Variant ServerLTC4S
SNP (GeneSNP Utah)LTC4S
SNP : HGBaseLTC4S
Genetic variants : HAPMAPLTC4S
Genomic VariantsLTC4S  LTC4S [DGVbeta]
Mutations
ICGC Data PortalENSG00000213316 
Somatic Mutations in Cancer : COSMICLTC4S 
CONAN: Copy Number AnalysisLTC4S 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)5:179220986-179223513
Mutations and Diseases : HGMDLTC4S
OMIM246530    614037   
MedgenLTC4S
NextProtQ16873 [Medical]
GENETestsLTC4S
Disease Genetic AssociationLTC4S
Huge Navigator LTC4S [HugePedia]  LTC4S [HugeCancerGEM]
snp3D : Map Gene to Disease4056
DGIdb (Drug Gene Interaction db)LTC4S
General knowledge
Homologs : HomoloGeneLTC4S
Homology/Alignments : Family Browser (UCSC)LTC4S
Phylogenetic Trees/Animal Genes : TreeFamLTC4S
Chemical/Protein Interactions : CTD4056
Chemical/Pharm GKB GenePA235
Clinical trialLTC4S
Cancer Resource (Charite)ENSG00000213316
Other databases
Probes
Litterature
PubMed90 Pubmed reference(s) in Entrez
CoreMineLTC4S
GoPubMedLTC4S
iHOPLTC4S
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Dec 20 23:31:14 CET 2014

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