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LYST (lysosomal trafficking regulator)

Identity

Alias (NCBI)CHS
CHS1
Mauve
HGNC (Hugo) LYST
HGNC Alias symbCHS
Mauve
HGNC Previous nameCHS1
HGNC Previous nameChediak-Higashi syndrome 1
LocusID (NCBI) 1130
Atlas_Id 56541
Location 1q42.3  [Link to chromosome band 1q42]
Location_base_pair Starts at 235661031 and ends at 235883708 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
FAM19A1 (3p14.1) / LYST (1q42.3)LYST (1q42.3) / DISC1 (1q42.2)LYST (1q42.3) / NID1 (1q42.3)
LYST (1q42.3) / SFTPB (2p11.2)LYST (1q42.3) / TRAF3IP1 (2q37.3)PWWP2B (10q26.3) / LYST (1q42.3)
RPS6KC1 (1q32.3) / LYST (1q42.3)TAPT1 (4p15.32) / LYST (1q42.3)

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

 



Other Cancer prone implicated (Data extracted from papers in the Atlas) [ 1 ]
  Chediak-Higashi Syndrome


External links

 

Nomenclature
HGNC (Hugo)LYST   1968
LRG (Locus Reference Genomic)LRG_143
Cards
Entrez_Gene (NCBI)LYST    lysosomal trafficking regulator
AliasesCHS; CHS1; Mauve
GeneCards (Weizmann)LYST
Ensembl hg19 (Hinxton)ENSG00000143669 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143669 [Gene_View]  ENSG00000143669 [Sequence]  chr1:235661031-235883708 [Contig_View]  LYST [Vega]
ICGC DataPortalENSG00000143669
TCGA cBioPortalLYST
AceView (NCBI)LYST
Genatlas (Paris)LYST
SOURCE (Princeton)LYST
Genetics Home Reference (NIH)LYST
Genomic and cartography
GoldenPath hg38 (UCSC)LYST  -     chr1:235661031-235883708 -  1q42.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LYST  -     1q42.3   [Description]    (hg19-Feb_2009)
GoldenPathLYST - 1q42.3 [CytoView hg19]  LYST - 1q42.3 [CytoView hg38]
ImmunoBaseENSG00000143669
Genome Data Viewer NCBILYST [Mapview hg19]  
OMIM214500   606897   
Gene and transcription
Genbank (Entrez)AA486745 AK307457 AK310790 AK311664 BC020793
RefSeq transcript (Entrez)NM_000081 NM_001005736 NM_001301365
Consensus coding sequences : CCDS (NCBI)LYST
Gene ExpressionLYST [ NCBI-GEO ]   LYST [ EBI - ARRAY_EXPRESS ]   LYST [ SEEK ]   LYST [ MEM ]
Gene Expression Viewer (FireBrowse)LYST [ Firebrowse - Broad ]
GenevisibleExpression of LYST in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1130
GTEX Portal (Tissue expression)LYST
Human Protein AtlasENSG00000143669-LYST [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ99698   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ99698  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ99698
PhosPhoSitePlusQ99698
Domaine pattern : Prosite (Expaxy)BEACH (PS50197)    PH_BEACH (PS51783)    WD_REPEATS_1 (PS00678)    WD_REPEATS_2 (PS50082)    WD_REPEATS_REGION (PS50294)   
Domains : Interpro (EBI)ARM-type_fold    BEACH_dom    BEACH_dom_sf    LYST    PH-BEACH_dom    WD40/YVTN_repeat-like_dom_sf    WD40_repeat    WD40_repeat_CS    WD40_repeat_dom    WD40_repeat_dom_sf   
Domain families : Pfam (Sanger)Beach (PF02138)    PH_BEACH (PF14844)    WD40 (PF00400)   
Domain families : Pfam (NCBI)pfam02138    pfam14844    pfam00400   
Domain families : Smart (EMBL)Beach (SM01026)  WD40 (SM00320)  
Conserved Domain (NCBI)LYST
SuperfamilyQ99698
AlphaFold pdb e-kbQ99698   
Human Protein Atlas [tissue]ENSG00000143669-LYST [tissue]
HPRD06060
Protein Interaction databases
DIP (DOE-UCLA)Q99698
IntAct (EBI)Q99698
BioGRIDLYST
STRING (EMBL)LYST
ZODIACLYST
Ontologies - Pathways
QuickGOQ99698
Ontology : AmiGOprotein binding  cytosol  phagocytosis  lysosome organization  protein localization  protein transport  microtubule cytoskeleton  membrane  protein kinase binding  leukocyte chemotaxis  melanosome organization  endosome to lysosome transport via multivesicular body sorting pathway  mast cell secretory granule organization  natural killer cell mediated cytotoxicity  defense response to bacterium  defense response to protozoan  pigmentation  defense response to virus  
Ontology : EGO-EBIprotein binding  cytosol  phagocytosis  lysosome organization  protein localization  protein transport  microtubule cytoskeleton  membrane  protein kinase binding  leukocyte chemotaxis  melanosome organization  endosome to lysosome transport via multivesicular body sorting pathway  mast cell secretory granule organization  natural killer cell mediated cytotoxicity  defense response to bacterium  defense response to protozoan  pigmentation  defense response to virus  
NDEx NetworkLYST
Atlas of Cancer Signalling NetworkLYST
Wikipedia pathwaysLYST
Orthology - Evolution
OrthoDB1130
GeneTree (enSembl)ENSG00000143669
Phylogenetic Trees/Animal Genes : TreeFamLYST
Homologs : HomoloGeneLYST
Homology/Alignments : Family Browser (UCSC)LYST
Gene fusions - Rearrangements
Fusion : QuiverLYST
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLYST [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LYST
dbVarLYST
ClinVarLYST
MonarchLYST
1000_GenomesLYST 
Exome Variant ServerLYST
GNOMAD BrowserENSG00000143669
Varsome BrowserLYST
ACMGLYST variants
VarityQ99698
Genomic Variants (DGV)LYST [DGVbeta]
DECIPHERLYST [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLYST 
Mutations
ICGC Data PortalLYST 
TCGA Data PortalLYST 
Broad Tumor PortalLYST
OASIS PortalLYST [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLYST  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLYST
Mutations and Diseases : HGMDLYST
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaLYST
DgiDB (Drug Gene Interaction Database)LYST
DoCM (Curated mutations)LYST
CIViC (Clinical Interpretations of Variants in Cancer)LYST
Cancer3DLYST
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM214500    606897   
Orphanet249    22107   
DisGeNETLYST
MedgenLYST
Genetic Testing Registry LYST
NextProtQ99698 [Medical]
GENETestsLYST
Target ValidationLYST
Huge Navigator LYST [HugePedia]
ClinGenLYST
Clinical trials, drugs, therapy
MyCancerGenomeLYST
Protein Interactions : CTDLYST
Pharm GKB GenePA26500
PharosQ99698
Clinical trialLYST
Miscellaneous
canSAR (ICR)LYST
HarmonizomeLYST
DataMed IndexLYST
Probes
Litterature
PubMed50 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXLYST
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Oct 4 15:17:21 CEST 2021

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