Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

LYN (LYN proto-oncogene, Src family tyrosine kinase)

Identity

Alias_namesv-yes-1 Yamaguchi sarcoma viral related oncogene homolog
Alias_symbol (synonym)JTK8
Other aliasp53Lyn
p56Lyn
HGNC (Hugo) LYN
LocusID (NCBI) 4067
Atlas_Id 41221
Location 8q12.1  [Link to chromosome band 8q12]
Location_base_pair Starts at 56792386 and ends at 56925006 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
BIN2 (12q13.13) / LYN (8q12.1)ETV6 (12p13.2) / LYN (8q12.1)FN1 (2q35) / LYN (8q12.1)
KAT6B (10q22.2) / LYN (8q12.1)LYN (8q12.1) / LYN (8q12.1)LYN (8q12.1) / NTRK3 (15q25.3)
LYN (8q12.1) / TGS1 (8q12.1)MCM5 (22q12.3) / LYN (8q12.1)NCOR1 (17p12) / LYN (8q12.1)
LYN 8q12.1 / NTRK3 15q25.3LYN 8q12.1 / TGS1 8q12.1MCM5 22q12.3 / LYN 8q12.1

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 Leukemias implicated (Data extracted from papers in the Atlas) [ 1 ]
  ins(12;8)(p13;q11q21) ETV6/LYN


External links

Nomenclature
HGNC (Hugo)LYN   6735
Cards
Entrez_Gene (NCBI)LYN  4067  LYN proto-oncogene, Src family tyrosine kinase
AliasesJTK8; p53Lyn; p56Lyn
GeneCards (Weizmann)LYN
Ensembl hg19 (Hinxton)ENSG00000254087 [Gene_View]  chr8:56792386-56925006 [Contig_View]  LYN [Vega]
Ensembl hg38 (Hinxton)ENSG00000254087 [Gene_View]  chr8:56792386-56925006 [Contig_View]  LYN [Vega]
ICGC DataPortalENSG00000254087
TCGA cBioPortalLYN
AceView (NCBI)LYN
Genatlas (Paris)LYN
WikiGenes4067
SOURCE (Princeton)LYN
Genetics Home Reference (NIH)LYN
Genomic and cartography
GoldenPath hg19 (UCSC)LYN  -     chr8:56792386-56925006 +  8q12.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)LYN  -     8q12.1   [Description]    (hg38-Dec_2013)
EnsemblLYN - 8q12.1 [CytoView hg19]  LYN - 8q12.1 [CytoView hg38]
Mapping of homologs : NCBILYN [Mapview hg19]  LYN [Mapview hg38]
OMIM165120   
Gene and transcription
Genbank (Entrez)AK130135 AK290494 AK298677 BC059394 BC068551
RefSeq transcript (Entrez)NM_001111097 NM_002350
RefSeq genomic (Entrez)NC_000008 NC_018919 NG_029593 NT_008183 NW_004929339
Consensus coding sequences : CCDS (NCBI)LYN
Cluster EST : UnigeneHs.545418 [ NCBI ]
CGAP (NCI)Hs.545418
Alternative Splicing GalleryENSG00000254087
Gene ExpressionLYN [ NCBI-GEO ]   LYN [ EBI - ARRAY_EXPRESS ]   LYN [ SEEK ]   LYN [ MEM ]
Gene Expression Viewer (FireBrowse)LYN [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4067
GTEX Portal (Tissue expression)LYN
Protein : pattern, domain, 3D structure
UniProt/SwissProtP07948   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP07948  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP07948
Splice isoforms : SwissVarP07948
Catalytic activity : Enzyme2.7.10.2 [ Enzyme-Expasy ]   2.7.10.22.7.10.2 [ IntEnz-EBI ]   2.7.10.2 [ BRENDA ]   2.7.10.2 [ KEGG ]   
PhosPhoSitePlusP07948
Domaine pattern : Prosite (Expaxy)PROTEIN_KINASE_ATP (PS00107)    PROTEIN_KINASE_DOM (PS50011)    PROTEIN_KINASE_TYR (PS00109)    SH2 (PS50001)    SH3 (PS50002)   
Domains : Interpro (EBI)Kinase-like_dom    Prot_kinase_dom    Protein_kinase_ATP_BS    Ser-Thr/Tyr_kinase_cat_dom    SH2    SH3_domain    Tyr_kinase_AS    Tyr_kinase_cat_dom   
Domain families : Pfam (Sanger)Pkinase_Tyr (PF07714)    SH2 (PF00017)    SH3_1 (PF00018)   
Domain families : Pfam (NCBI)pfam07714    pfam00017    pfam00018   
Domain families : Smart (EMBL)SH2 (SM00252)  SH3 (SM00326)  TyrKc (SM00219)  
Conserved Domain (NCBI)LYN
DMDM Disease mutations4067
Blocks (Seattle)LYN
PDB (SRS)1W1F    1WA7    3A4O   
PDB (PDBSum)1W1F    1WA7    3A4O   
PDB (IMB)1W1F    1WA7    3A4O   
PDB (RSDB)1W1F    1WA7    3A4O   
Structural Biology KnowledgeBase1W1F    1WA7    3A4O   
SCOP (Structural Classification of Proteins)1W1F    1WA7    3A4O   
CATH (Classification of proteins structures)1W1F    1WA7    3A4O   
SuperfamilyP07948
Human Protein AtlasENSG00000254087
Peptide AtlasP07948
HPRD01301
IPIIPI00298625   IPI00432416   IPI00940936   IPI00984984   
Protein Interaction databases
DIP (DOE-UCLA)P07948
IntAct (EBI)P07948
FunCoupENSG00000254087
BioGRIDLYN
STRING (EMBL)LYN
ZODIACLYN
Ontologies - Pathways
QuickGOP07948
Ontology : AmiGOB cell homeostasis  regulation of cytokine production  regulation of protein phosphorylation  negative regulation of protein phosphorylation  stimulatory C-type lectin receptor signaling pathway  adaptive immune response  Fc receptor mediated stimulatory signaling pathway  Fc receptor mediated stimulatory signaling pathway  tolerance induction to self antigen  tolerance induction to self antigen  histamine secretion by mast cell  platelet degranulation  platelet degranulation  negative regulation of myeloid leukocyte differentiation  immune response-regulating cell surface receptor signaling pathway  immune response-regulating cell surface receptor signaling pathway  Fc receptor mediated inhibitory signaling pathway  regulation of B cell apoptotic process  protein tyrosine kinase activity  protein tyrosine kinase activity  protein tyrosine kinase activity  non-membrane spanning protein tyrosine kinase activity  non-membrane spanning protein tyrosine kinase activity  receptor signaling protein tyrosine kinase activity  receptor binding  platelet-derived growth factor receptor binding  integrin binding  protein binding  ATP binding  nucleus  nucleus  cytoplasm  mitochondrial intermembrane space  Golgi apparatus  cytosol  plasma membrane  plasma membrane  cell-cell adherens junction  protein phosphorylation  inflammatory response  cellular response to DNA damage stimulus  response to sterol depletion  signal transduction  transmembrane receptor protein tyrosine kinase signaling pathway  central nervous system development  blood coagulation  positive regulation of cell proliferation  negative regulation of cell proliferation  response to toxic substance  response to hormone  response to carbohydrate  positive regulation of neuron projection development  oligodendrocyte development  postsynaptic density  response to organic cyclic compound  viral process  SH3 domain binding  peptidyl-tyrosine phosphorylation  enzyme binding  signal transduction by protein phosphorylation  mitochondrial crista  platelet activation  erythrocyte differentiation  positive regulation of cell migration  negative regulation of B cell proliferation  neuron projection development  extrinsic component of cytoplasmic side of plasma membrane  T cell costimulation  ubiquitin protein ligase binding  lipopolysaccharide-mediated signaling pathway  cellular response to extracellular stimulus  response to insulin  regulation of mast cell activation  regulation of cell adhesion mediated by integrin  negative regulation of toll-like receptor 2 signaling pathway  negative regulation of toll-like receptor 4 signaling pathway  cellular response to heat  integrin alpha2-beta1 complex  peptidyl-tyrosine autophosphorylation  Fc-epsilon receptor signaling pathway  Fc-gamma receptor signaling pathway involved in phagocytosis  response to drug  positive regulation of tyrosine phosphorylation of STAT protein  mast cell granule  gamma-tubulin binding  response to amino acid  glycosphingolipid binding  regulation of mast cell degranulation  regulation of mast cell degranulation  negative regulation of MAP kinase activity  positive regulation of phosphatidylinositol 3-kinase activity  ion channel binding  innate immune response  membrane raft  regulation of erythrocyte differentiation  protein autophosphorylation  ephrin receptor signaling pathway  perinuclear region of cytoplasm  response to axon injury  cytokine secretion  regulation of cytokine secretion  regulation of inflammatory response  negative regulation of immune response  B cell receptor signaling pathway  regulation of B cell receptor signaling pathway  regulation of B cell receptor signaling pathway  positive regulation of B cell receptor signaling pathway  leukocyte migration  phosphoprotein binding  positive regulation of cellular component movement  regulation of release of sequestered calcium ion into cytosol  positive regulation of glial cell proliferation  positive regulation of Fc receptor mediated stimulatory signaling pathway  JAK-STAT cascade involved in growth hormone signaling pathway  extracellular exosome  positive regulation of stress-activated protein kinase signaling cascade  regulation of ERK1 and ERK2 cascade  negative regulation of ERK1 and ERK2 cascade  positive regulation of oligodendrocyte progenitor proliferation  negative regulation of mast cell proliferation  negative regulation of mast cell proliferation  positive regulation of mast cell proliferation  cellular response to retinoic acid  regulation of monocyte chemotaxis  regulation of platelet aggregation  regulation of platelet aggregation  dendritic cell differentiation  dendritic cell differentiation  negative regulation of intracellular signal transduction  positive regulation of dendritic cell apoptotic process  positive regulation of dendritic cell apoptotic process  
Ontology : EGO-EBIB cell homeostasis  regulation of cytokine production  regulation of protein phosphorylation  negative regulation of protein phosphorylation  stimulatory C-type lectin receptor signaling pathway  adaptive immune response  Fc receptor mediated stimulatory signaling pathway  Fc receptor mediated stimulatory signaling pathway  tolerance induction to self antigen  tolerance induction to self antigen  histamine secretion by mast cell  platelet degranulation  platelet degranulation  negative regulation of myeloid leukocyte differentiation  immune response-regulating cell surface receptor signaling pathway  immune response-regulating cell surface receptor signaling pathway  Fc receptor mediated inhibitory signaling pathway  regulation of B cell apoptotic process  protein tyrosine kinase activity  protein tyrosine kinase activity  protein tyrosine kinase activity  non-membrane spanning protein tyrosine kinase activity  non-membrane spanning protein tyrosine kinase activity  receptor signaling protein tyrosine kinase activity  receptor binding  platelet-derived growth factor receptor binding  integrin binding  protein binding  ATP binding  nucleus  nucleus  cytoplasm  mitochondrial intermembrane space  Golgi apparatus  cytosol  plasma membrane  plasma membrane  cell-cell adherens junction  protein phosphorylation  inflammatory response  cellular response to DNA damage stimulus  response to sterol depletion  signal transduction  transmembrane receptor protein tyrosine kinase signaling pathway  central nervous system development  blood coagulation  positive regulation of cell proliferation  negative regulation of cell proliferation  response to toxic substance  response to hormone  response to carbohydrate  positive regulation of neuron projection development  oligodendrocyte development  postsynaptic density  response to organic cyclic compound  viral process  SH3 domain binding  peptidyl-tyrosine phosphorylation  enzyme binding  signal transduction by protein phosphorylation  mitochondrial crista  platelet activation  erythrocyte differentiation  positive regulation of cell migration  negative regulation of B cell proliferation  neuron projection development  extrinsic component of cytoplasmic side of plasma membrane  T cell costimulation  ubiquitin protein ligase binding  lipopolysaccharide-mediated signaling pathway  cellular response to extracellular stimulus  response to insulin  regulation of mast cell activation  regulation of cell adhesion mediated by integrin  negative regulation of toll-like receptor 2 signaling pathway  negative regulation of toll-like receptor 4 signaling pathway  cellular response to heat  integrin alpha2-beta1 complex  peptidyl-tyrosine autophosphorylation  Fc-epsilon receptor signaling pathway  Fc-gamma receptor signaling pathway involved in phagocytosis  response to drug  positive regulation of tyrosine phosphorylation of STAT protein  mast cell granule  gamma-tubulin binding  response to amino acid  glycosphingolipid binding  regulation of mast cell degranulation  regulation of mast cell degranulation  negative regulation of MAP kinase activity  positive regulation of phosphatidylinositol 3-kinase activity  ion channel binding  innate immune response  membrane raft  regulation of erythrocyte differentiation  protein autophosphorylation  ephrin receptor signaling pathway  perinuclear region of cytoplasm  response to axon injury  cytokine secretion  regulation of cytokine secretion  regulation of inflammatory response  negative regulation of immune response  B cell receptor signaling pathway  regulation of B cell receptor signaling pathway  regulation of B cell receptor signaling pathway  positive regulation of B cell receptor signaling pathway  leukocyte migration  phosphoprotein binding  positive regulation of cellular component movement  regulation of release of sequestered calcium ion into cytosol  positive regulation of glial cell proliferation  positive regulation of Fc receptor mediated stimulatory signaling pathway  JAK-STAT cascade involved in growth hormone signaling pathway  extracellular exosome  positive regulation of stress-activated protein kinase signaling cascade  regulation of ERK1 and ERK2 cascade  negative regulation of ERK1 and ERK2 cascade  positive regulation of oligodendrocyte progenitor proliferation  negative regulation of mast cell proliferation  negative regulation of mast cell proliferation  positive regulation of mast cell proliferation  cellular response to retinoic acid  regulation of monocyte chemotaxis  regulation of platelet aggregation  regulation of platelet aggregation  dendritic cell differentiation  dendritic cell differentiation  negative regulation of intracellular signal transduction  positive regulation of dendritic cell apoptotic process  positive regulation of dendritic cell apoptotic process  
Pathways : BIOCARTABCR Signaling Pathway [Genes]    Eph Kinases and ephrins support platelet aggregation [Genes]    Fc Epsilon Receptor I Signaling in Mast Cells [Genes]    Phosphoinositides and their downstream targets. [Genes]   
Pathways : KEGGChemokine signaling pathway    NF-kappa B signaling pathway    B cell receptor signaling pathway    Fc epsilon RI signaling pathway    Fc gamma R-mediated phagocytosis    Long-term depression    Epithelial cell signaling in Helicobacter pylori infection    Epstein-Barr virus infection    Viral carcinogenesis   
NDEx NetworkLYN
Atlas of Cancer Signalling NetworkLYN
Wikipedia pathwaysLYN
Orthology - Evolution
OrthoDB4067
GeneTree (enSembl)ENSG00000254087
Phylogenetic Trees/Animal Genes : TreeFamLYN
HOVERGENP07948
HOGENOMP07948
Homologs : HomoloGeneLYN
Homology/Alignments : Family Browser (UCSC)LYN
Gene fusions - Rearrangements
Fusion : MitelmanLYN/NTRK3 [8q12.1/15q25.3]  
Fusion : MitelmanLYN/TGS1 [8q12.1/8q12.1]  [t(8;8)(q12;q12)]  
Fusion : MitelmanMCM5/LYN [22q12.3/8q12.1]  [t(8;22)(q12;q12)]  
Fusion: TCGALYN 8q12.1 NTRK3 15q25.3 HNSC
Fusion: TCGALYN 8q12.1 TGS1 8q12.1 HNSC LGG
Fusion: TCGAMCM5 22q12.3 LYN 8q12.1 OV
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLYN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LYN
dbVarLYN
ClinVarLYN
1000_GenomesLYN 
Exome Variant ServerLYN
ExAC (Exome Aggregation Consortium)LYN (select the gene name)
Genetic variants : HAPMAP4067
Genomic Variants (DGV)LYN [DGVbeta]
DECIPHER (Syndromes)8:56792386-56925006  ENSG00000254087
CONAN: Copy Number AnalysisLYN 
Mutations
ICGC Data PortalLYN 
TCGA Data PortalLYN 
Broad Tumor PortalLYN
OASIS PortalLYN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLYN  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLYN
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 LYN
DgiDB (Drug Gene Interaction Database)LYN
DoCM (Curated mutations)LYN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LYN (select a term)
intoGenLYN
Cancer3DLYN(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM165120   
Orphanet
MedgenLYN
Genetic Testing Registry LYN
NextProtP07948 [Medical]
TSGene4067
GENETestsLYN
Huge Navigator LYN [HugePedia]
snp3D : Map Gene to Disease4067
BioCentury BCIQLYN
ClinGenLYN
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD4067
Chemical/Pharm GKB GenePA30498
Clinical trialLYN
Miscellaneous
canSAR (ICR)LYN (select the gene name)
Probes
Litterature
PubMed356 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLYN
EVEXLYN
GoPubMedLYN
iHOPLYN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Mar 30 15:08:07 CEST 2017

Home   Genes   Leukemias   Solid Tumours   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.