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LYN LYN proto-oncogene, Src family tyrosine kinase [ Homo sapiens (human) ]

Gene ID: 4067, updated on 24-Nov-2020

Summary

Official Symbol
LYNprovided by HGNC
Official Full Name
LYN proto-oncogene, Src family tyrosine kinaseprovided by HGNC
Primary source
HGNC:HGNC:6735
See related
Ensembl:ENSG00000254087 MIM:165120
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
JTK8; p53Lyn; p56Lyn
Summary
This gene encodes a tyrosine protein kinase, which maybe involved in the regulation of mast cell degranulation, and erythroid differentiation. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2011]
Expression
Broad expression in spleen (RPKM 32.6), appendix (RPKM 29.7) and 20 other tissues See more
Orthologs

Genomic context

See LYN in Genome Data Viewer
Location:
8q12.1
Exon count:
15
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 8 NC_000008.11 (55876041..56014169)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (56792386..56925006)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene trimethylguanosine synthase 1 Neighboring gene CRISPRi-validated cis-regulatory element chr8.1663 Neighboring gene small nucleolar RNA, H/ACA box 1B Neighboring gene RNA, 7SL, cytoplasmic 798, pseudogene Neighboring gene RNA, 7SL, cytoplasmic 323, pseudogene Neighboring gene proteasome 26S subunit, ATPase, 6 pseudogene 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genome-wide association study identifies a novel susceptibility gene for serum TSH levels in Chinese populations.
GeneReviews: Not available
Many sequence variants affecting diversity of adult human height.
GeneReviews: Not available

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env CCR5 activation by gp120 triggers the assembly of endogenous Lyn, PI3K, and Pyk2 and is associated with PI3K and Pyk2 translocation from the cytoplasm to the membrane where they colocalized with Lyn PubMed
env Concomitant activation of Lyn, Pyk2, and class IA PI3K are required for gp120-induced IL-1beta production PubMed
env Stimulation of human monocyte-derived macrophages with HIV-1 gp120 results in the CCR5-mediated activation of Lyn and the concomitant Lyn-dependent activation of the mitogen-activated protein (MAP) kinase ERK-1/2, which leads to production of TNF-alpha PubMed
Nef nef The primary M-group HIV-1 Nef proteins (from A, B, C, F, G, H, J, and K subtypes) strongly activate LYN in cells PubMed
nef Interaction of HIV-1 Nef with the SH3 domain of Lyn regulates its effects on Lyn tyrosine kinase activation PubMed
nef The interaction of HIV-1 Nef with Lyn does not induce Lyn kinase activation PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ26625

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
SH3 domain binding IEA
Inferred from Electronic Annotation
more info
 
ephrin receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
gamma-tubulin binding IEA
Inferred from Electronic Annotation
more info
 
glycosphingolipid binding IEA
Inferred from Electronic Annotation
more info
 
integrin binding IEA
Inferred from Electronic Annotation
more info
 
ion channel binding IPI
Inferred from Physical Interaction
more info
PubMed 
kinase activity NAS
Non-traceable Author Statement
more info
PubMed 
non-membrane spanning protein tyrosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
non-membrane spanning protein tyrosine kinase activity TAS
Traceable Author Statement
more info
 
phosphoprotein binding IEA
Inferred from Electronic Annotation
more info
 
phosphorylation-dependent protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
platelet-derived growth factor receptor binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein tyrosine kinase activity EXP
Inferred from Experiment
more info
PubMed 
protein tyrosine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein tyrosine kinase activity TAS
Traceable Author Statement
more info
 
signaling receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
B cell homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
B cell receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Fc receptor mediated inhibitory signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
Fc receptor mediated stimulatory signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Fc receptor mediated stimulatory signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
Fc-epsilon receptor signaling pathway TAS
Traceable Author Statement
more info
 
Fc-gamma receptor signaling pathway involved in phagocytosis TAS
Traceable Author Statement
more info
 
T cell costimulation TAS
Traceable Author Statement
more info
 
adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
blood coagulation TAS
Traceable Author Statement
more info
 
cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to DNA damage stimulus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to DNA damage stimulus IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to extracellular stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to heat IEA
Inferred from Electronic Annotation
more info
 
cellular response to retinoic acid IMP
Inferred from Mutant Phenotype
more info
PubMed 
cytokine production IEA
Inferred from Electronic Annotation
more info
 
dendritic cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dendritic cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
ephrin receptor signaling pathway TAS
Traceable Author Statement
more info
 
erythrocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
growth hormone receptor signaling pathway via JAK-STAT TAS
Traceable Author Statement
more info
 
histamine secretion by mast cell IEA
Inferred from Electronic Annotation
more info
 
immune response-regulating cell surface receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
immune response-regulating cell surface receptor signaling pathway TAS
Traceable Author Statement
more info
PubMed 
innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intracellular signal transduction IEA
Inferred from Electronic Annotation
more info
 
leukocyte migration TAS
Traceable Author Statement
more info
 
lipopolysaccharide-mediated signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of B cell proliferation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of ERK1 and ERK2 cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of MAP kinase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of immune response TAS
Traceable Author Statement
more info
PubMed 
negative regulation of intracellular signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of mast cell proliferation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of mast cell proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of myeloid leukocyte differentiation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of protein phosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of toll-like receptor 2 signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of toll-like receptor 4 signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
neuron projection development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
oligodendrocyte development IEA
Inferred from Electronic Annotation
more info
 
peptidyl-tyrosine autophosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-tyrosine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
platelet activation TAS
Traceable Author Statement
more info
 
platelet degranulation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
platelet degranulation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of Fc receptor mediated stimulatory signaling pathway IEA
Inferred from Electronic Annotation
more info
 
positive regulation of Ras protein signal transduction TAS
Traceable Author Statement
more info
 
positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell migration IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell population proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cellular component movement IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of dendritic cell apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of dendritic cell apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of glial cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of mast cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of neuron projection development IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of oligodendrocyte progenitor proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of phosphatidylinositol 3-kinase activity IEA
Inferred from Electronic Annotation
more info
 
positive regulation of phosphatidylinositol 3-kinase signaling TAS
Traceable Author Statement
more info
 
positive regulation of protein phosphorylation IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of stress-activated protein kinase signaling cascade IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of tyrosine phosphorylation of STAT protein ISS
Inferred from Sequence or Structural Similarity
more info
 
protein autophosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
regulation of B cell apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of B cell receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of B cell receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of ERK1 and ERK2 cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of cell adhesion mediated by integrin IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of cell population proliferation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of cytokine production IEA
Inferred from Electronic Annotation
more info
 
regulation of cytokine production ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of erythrocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of inflammatory response IEA
Inferred from Electronic Annotation
more info
 
regulation of mast cell activation ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of mast cell degranulation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of mast cell degranulation ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of monocyte chemotaxis IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of platelet aggregation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of platelet aggregation ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of protein phosphorylation TAS
Traceable Author Statement
more info
PubMed 
regulation of release of sequestered calcium ion into cytosol IEA
Inferred from Electronic Annotation
more info
 
response to amino acid IEA
Inferred from Electronic Annotation
more info
 
response to axon injury IEA
Inferred from Electronic Annotation
more info
 
response to carbohydrate IEA
Inferred from Electronic Annotation
more info
 
response to drug IEA
Inferred from Electronic Annotation
more info
 
response to hormone ISS
Inferred from Sequence or Structural Similarity
more info
 
response to insulin IEA
Inferred from Electronic Annotation
more info
 
response to organic cyclic compound IEA
Inferred from Electronic Annotation
more info
 
response to sterol depletion IEA
Inferred from Electronic Annotation
more info
 
response to toxic substance IEA
Inferred from Electronic Annotation
more info
 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
stimulatory C-type lectin receptor signaling pathway TAS
Traceable Author Statement
more info
 
tolerance induction to self antigen IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
tolerance induction to self antigen ISS
Inferred from Sequence or Structural Similarity
more info
 
tolerance induction to self antigen TAS
Traceable Author Statement
more info
PubMed 
toll-like receptor 4 signaling pathway IEA
Inferred from Electronic Annotation
more info
 
transmembrane receptor protein tyrosine kinase signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transmembrane receptor protein tyrosine kinase signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
adherens junction IEA
Inferred from Electronic Annotation
more info
 
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
cytosol TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
extrinsic component of cytoplasmic side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integrin alpha2-beta1 complex IEA
Inferred from Electronic Annotation
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
membrane raft IDA
Inferred from Direct Assay
more info
PubMed 
membrane raft ISS
Inferred from Sequence or Structural Similarity
more info
 
mitochondrial crista IEA
Inferred from Electronic Annotation
more info
 
mitochondrial intermembrane space IEA
Inferred from Electronic Annotation
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
postsynaptic density IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
tyrosine-protein kinase Lyn
Names
lck/Yes-related novel protein tyrosine kinase
v-yes-1 Yamaguchi sarcoma viral related oncogene homolog
NP_001104567.1
NP_002341.1
XP_011515831.1
XP_016868904.1
XP_016868905.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_029593.1 RefSeqGene

    Range
    5009..139343
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001111097.3NP_001104567.1  tyrosine-protein kinase Lyn isoform B

    See identical proteins and their annotated locations for NP_001104567.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame donor splice site in the 5' coding region compared to variant 1. This results in a shorter isoform (B) missing an internal protein segment compared to isoform A.
    Source sequence(s)
    AC046176, BC068551, BG059526, BU954348, DA948647
    Consensus CDS
    CCDS47859.1
    UniProtKB/Swiss-Prot
    P07948
    UniProtKB/TrEMBL
    Q6NUK7
    Related
    ENSP00000428424.1, ENST00000520220.6
    Conserved Domains (3) summary
    cd10364
    Location:104204
    SH2_Src_Lyn; Src homology 2 (SH2) domain found in Lyn
    cd12004
    Location:46101
    SH3_Lyn; Src homology 3 domain of Lyn Protein Tyrosine Kinase
    cd05072
    Location:218489
    PTKc_Lyn; Catalytic domain of the Protein Tyrosine Kinase, Lyn
  2. NM_002350.4NP_002341.1  tyrosine-protein kinase Lyn isoform A

    See identical proteins and their annotated locations for NP_002341.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (A).
    Source sequence(s)
    AC046176, AK290494, BC068551, BG059526, BU954348, CB990993, DA948647
    Consensus CDS
    CCDS6162.1
    UniProtKB/Swiss-Prot
    P07948
    UniProtKB/TrEMBL
    A8K379, Q6NUK7
    Related
    ENSP00000428924.1, ENST00000519728.6
    Conserved Domains (3) summary
    cd10364
    Location:125225
    SH2_Src_Lyn; Src homology 2 (SH2) domain found in Lyn
    cd12004
    Location:67122
    SH3_Lyn; Src homology 3 domain of Lyn Protein Tyrosine Kinase
    cd05072
    Location:239510
    PTKc_Lyn; Catalytic domain of the Protein Tyrosine Kinase, Lyn

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p13 Primary Assembly

    Range
    55876041..56014169
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011517529.3XP_011515831.1  tyrosine-protein kinase Lyn isoform X1

    Conserved Domains (4) summary
    cd10364
    Location:295395
    SH2_Src_Lyn; Src homology 2 (SH2) domain found in Lyn
    cd12004
    Location:237292
    SH3_Lyn; Src homology 3 domain of Lyn Protein Tyrosine Kinase
    cd05072
    Location:409680
    PTKc_Lyn; Catalytic domain of the Protein Tyrosine Kinase, Lyn
    pfam07714
    Location:417667
    Pkinase_Tyr; Protein tyrosine kinase
  2. XM_017013415.2XP_016868904.1  tyrosine-protein kinase Lyn isoform X2

  3. XM_017013416.1XP_016868905.1  tyrosine-protein kinase Lyn isoform X3

    UniProtKB/Swiss-Prot
    P07948
    Conserved Domains (3) summary
    cd10364
    Location:104204
    SH2_Src_Lyn; Src homology 2 (SH2) domain found in Lyn
    cd12004
    Location:46101
    SH3_Lyn; Src homology 3 domain of Lyn Protein Tyrosine Kinase
    cd05072
    Location:218489
    PTKc_Lyn; Catalytic domain of the Protein Tyrosine Kinase, Lyn
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