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

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; AllianceGenome:HGNC:6735
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; SAIDV; 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: mouse all
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Genomic context

Location:: 8q12.1

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	8	NC_000008.11 (55879835..56014169)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	8	NC_060932.1 (56256887..56391325)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	8	NC_000008.10 (56792394..56926728)

Chromosome 8 - NC_000008.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

A novel lncRNA associated with the prognosis of patients with colorectal cancer resists apoptosis through the LYN/BCL-2 pathway.
Title: A novel lncRNA associated with the prognosis of patients with colorectal cancer resists apoptosis through the LYN/BCL-2 pathway.
Phosphorylation of rpS3 by Lyn increases translation of Multi-Drug Resistance (MDR1) gene.
Title: Phosphorylation of rpS3 by Lyn increases translation of Multi-Drug Resistance (MDR1) gene.
Enhanced Lyn Activity Causes Severe, Progressive Emphysema and Lung Cancer.
Title: Enhanced Lyn Activity Causes Severe, Progressive Emphysema and Lung Cancer.
Constitutively active Lyn kinase causes a cutaneous small vessel vasculitis and liver fibrosis syndrome.
Title: Constitutively active Lyn kinase causes a cutaneous small vessel vasculitis and liver fibrosis syndrome.
LYN kinase programs stromal fibroblasts to facilitate leukemic survival via regulation of c-JUN and THBS1.
Title: LYN kinase programs stromal fibroblasts to facilitate leukemic survival via regulation of c-JUN and THBS1.
Fyn and Lyn gene polymorphisms impact the risk of thyroid cancer.
Title: Fyn and Lyn gene polymorphisms impact the risk of thyroid cancer.
CBL mutations drive PI3K/AKT signaling via increased interaction with LYN and PIK3R1.
Title: CBL mutations drive PI3K/AKT signaling via increased interaction with LYN and PIK3R1.
Leukemic cells expressing NCOR1-LYN are sensitive to dasatinib in vivo in a patient-derived xenograft mouse model.
Title: Leukemic cells expressing NCOR1-LYN are sensitive to dasatinib in vivo in a patient-derived xenograft mouse model.
Erlotinib is effective against FLT3-ITD mutant AML and helps to overcome intratumoral heterogeneity via targeting FLT3 and Lyn.
Title: Erlotinib is effective against FLT3-ITD mutant AML and helps to overcome intratumoral heterogeneity via targeting FLT3 and Lyn.
Lyn regulates creatine uptake in an imatinib-resistant CML cell line.
Title: Lyn regulates creatine uptake in an imatinib-resistant CML cell line.

Submit: New GeneRIF Correction See all GeneRIFs (137)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description	Tests
Autoinflammatory disease, systemic, with vasculitis MedGen: C5830525 OMIM: 620376 GeneReviews: Not available	Compare labs

EBI GWAS Catalog

Description
Genome-wide association study identifies a novel susceptibility gene for serum TSH levels in Chinese populations. EBI GWAS Catalog EBI GWAS CatalogPubMed
Many sequence variants affecting diversity of adult human height. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See Variation Viewer (GRCh37.p13)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:482304

RH18289 (e-PCR)
- UniSTS:56576

D8S1516 (e-PCR)
- UniSTS:57176

D8S1828 (e-PCR)
- UniSTS:16478

RH69081 (e-PCR)
- UniSTS:39826

SHGC-58186 (e-PCR)
- UniSTS:9365

D8S1930 (e-PCR)
- UniSTS:55474

LYN_1415 (e-PCR)
- UniSTS:277459

GDB:386774 (e-PCR)
- UniSTS:157151

RH48206 (e-PCR)
- UniSTS:13029

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables SH3 domain binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	IPI Inferred from Physical Interaction more info	PubMed
enables ephrin receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables gamma-tubulin binding	IEA Inferred from Electronic Annotation more info
enables glycosphingolipid binding	IEA Inferred from Electronic Annotation more info
enables histone H2AXY142 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3Y41 kinase activity	IEA Inferred from Electronic Annotation more info
enables integrin binding	IEA Inferred from Electronic Annotation more info
enables kinase activity	NAS Non-traceable Author Statement more info	PubMed
enables non-membrane spanning protein tyrosine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables non-membrane spanning protein tyrosine kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables non-membrane spanning protein tyrosine kinase activity	TAS Traceable Author Statement more info
enables phosphatidylinositol 3-kinase activator activity	IEA Inferred from Electronic Annotation more info
enables phosphoprotein binding	IEA Inferred from Electronic Annotation more info
enables phosphorylation-dependent protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables platelet-derived growth factor receptor binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein tyrosine kinase activity	EXP Inferred from Experiment more info	PubMed
enables protein tyrosine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein tyrosine kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein tyrosine kinase activity	TAS Traceable Author Statement more info
enables scaffold protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables transmembrane transporter binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in B cell homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in B cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in C-X-C chemokine receptor CXCR4 signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA damage checkpoint signaling	IDA Inferred from Direct Assay more info	PubMed
involved_in DNA damage response	IBA Inferred from Biological aspect of Ancestor more info
involved_in DNA damage response	IDA Inferred from Direct Assay more info	PubMed
involved_in Fc receptor mediated inhibitory signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in Fc receptor mediated stimulatory signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in Fc receptor mediated stimulatory signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in Fc-epsilon receptor signaling pathway	TAS Traceable Author Statement more info
involved_in Fc-gamma receptor signaling pathway involved in phagocytosis	TAS Traceable Author Statement more info
involved_in T cell costimulation	TAS Traceable Author Statement more info
involved_in adaptive immune response	IEA Inferred from Electronic Annotation more info
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in cell morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to heat	IEA Inferred from Electronic Annotation more info
involved_in cellular response to retinoic acid	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in dendritic cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in dendritic cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in eosinophil differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in ephrin receptor signaling pathway	TAS Traceable Author Statement more info
involved_in erythrocyte differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in fatty acid transport	IDA Inferred from Direct Assay more info	PubMed
involved_in growth hormone receptor signaling pathway via JAK-STAT	TAS Traceable Author Statement more info
involved_in hematopoietic progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in histamine secretion by mast cell	IEA Inferred from Electronic Annotation more info
involved_in immune response-regulating cell surface receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in immune response-regulating cell surface receptor signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in interleukin-5-mediated signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in leukocyte migration	TAS Traceable Author Statement more info
involved_in lipopolysaccharide-mediated signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of B cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of ERK1 and ERK2 cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of MAP kinase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of immune response	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of inflammatory response to antigenic stimulus	TAS Traceable Author Statement more info
involved_in negative regulation of intracellular signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of mast cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of myeloid leukocyte differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of protein phosphorylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of toll-like receptor 2 signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of toll-like receptor 4 signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuroinflammatory response	IEA Inferred from Electronic Annotation more info
involved_in neuron projection development	IBA Inferred from Biological aspect of Ancestor more info
involved_in oligodendrocyte development	IEA Inferred from Electronic Annotation more info
involved_in peptidyl-tyrosine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in platelet degranulation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of Fc receptor mediated stimulatory signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of MAPK cascade	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell migration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of dendritic cell apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of glial cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of mast cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of oligodendrocyte progenitor proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein phosphorylation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in protein autophosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of B cell apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of B cell receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of B cell receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of ERK1 and ERK2 cascade	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell adhesion mediated by integrin	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cytokine production	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of erythrocyte differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mast cell activation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mast cell degranulation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of monocyte chemotaxis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of platelet aggregation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of protein phosphorylation	TAS Traceable Author Statement more info	PubMed
involved_in regulation of release of sequestered calcium ion into cytosol	IEA Inferred from Electronic Annotation more info
involved_in response to amino acid	IEA Inferred from Electronic Annotation more info
involved_in response to axon injury	IEA Inferred from Electronic Annotation more info
involved_in response to carbohydrate	IEA Inferred from Electronic Annotation more info
involved_in response to hormone	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to insulin	IEA Inferred from Electronic Annotation more info
involved_in response to organic cyclic compound	IEA Inferred from Electronic Annotation more info
involved_in response to sterol depletion	IEA Inferred from Electronic Annotation more info
involved_in response to toxic substance	IEA Inferred from Electronic Annotation more info
involved_in response to xenobiotic stimulus	IEA Inferred from Electronic Annotation more info
involved_in signal transduction	TAS Traceable Author Statement more info	PubMed
involved_in stimulatory C-type lectin receptor signaling pathway	TAS Traceable Author Statement more info
involved_in tolerance induction to self antigen	IBA Inferred from Biological aspect of Ancestor more info
involved_in tolerance induction to self antigen	ISS Inferred from Sequence or Structural Similarity more info
involved_in tolerance induction to self antigen	TAS Traceable Author Statement more info	PubMed
involved_in toll-like receptor 4 signaling pathway	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info	PubMed
located_in adherens junction	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasmic side of plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	TAS Traceable Author Statement more info
located_in endocytic vesicle membrane	TAS Traceable Author Statement more info
located_in extracellular exosome	HDA more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
part_of integrin alpha2-beta1 complex	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	IDA Inferred from Direct Assay more info
located_in lysosomal membrane	TAS Traceable Author Statement more info
located_in membrane raft	IDA Inferred from Direct Assay more info	PubMed
located_in membrane raft	ISS Inferred from Sequence or Structural Similarity more info
located_in mitochondrial crista	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info
located_in postsynaptic specialization, intracellular component	IEA Inferred from Electronic Annotation more info

General protein information

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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

EC 2.7.10.2

NP_002341.1

EC 2.7.10.2

XP_011515831.2

EC 2.7.10.2

XP_054216452.1

EC 2.7.10.2

NCBI Reference Sequences (RefSeq)

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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

NG_029593.1 RefSeqGene

Range

5009..139343

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001111097.3 → NP_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/TrEMBL

A8K379

Related

ENSP00000428424.1, ENST00000520220.6

Conserved Domains (3) summary

cd10364
Location:104 → 204

SH2_Src_Lyn; Src homology 2 (SH2) domain found in Lyn

cd12004
Location:46 → 101

SH3_Lyn; Src homology 3 domain of Lyn Protein Tyrosine Kinase

cd05072
Location:218 → 489

PTKc_Lyn; Catalytic domain of the Protein Tyrosine Kinase, Lyn
NM_002350.4 → NP_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

A0AVQ5, P07948

UniProtKB/TrEMBL

A8K379

Related

ENSP00000428924.1, ENST00000519728.6

Conserved Domains (3) summary

cd10364
Location:125 → 225

SH2_Src_Lyn; Src homology 2 (SH2) domain found in Lyn

cd12004
Location:67 → 122

SH3_Lyn; Src homology 3 domain of Lyn Protein Tyrosine Kinase

cd05072
Location:239 → 510

PTKc_Lyn; Catalytic domain of the Protein Tyrosine Kinase, Lyn