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Lyn LYN proto-oncogene, Src family tyrosine kinase [ Rattus norvegicus (Norway rat) ]

Gene ID: 81515, updated on 27-Nov-2024

Summary

Official Symbol
Lynprovided by RGD
Official Full Name
LYN proto-oncogene, Src family tyrosine kinaseprovided by RGD
Primary source
RGD:621017
See related
EnsemblRapid:ENSRNOG00000008180 AllianceGenome:RGD:621017
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
p53Lyn; p56Lyn
Summary
Enables several functions, including gamma-tubulin binding activity; signaling receptor binding activity; and ubiquitin protein ligase binding activity. Involved in several processes, including histamine secretion by mast cell; positive regulation of Fc receptor mediated stimulatory signaling pathway; and positive regulation of gliogenesis. Located in adherens junction; mitochondrial crista; and perinuclear region of cytoplasm. Part of integrin alpha2-beta1 complex. Is active in glutamatergic synapse and postsynaptic specialization, intracellular component. Biomarker of Parkinsonism and endometriosis. Orthologous to human LYN (LYN proto-oncogene, Src family tyrosine kinase). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 493.9), Lung (RPKM 314.9) and 8 other tissues See more
Orthologs
NEW
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Try the new Transcript table

Genomic context

See Lyn in Genome Data Viewer
Location:
5q12
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (21437127..21553097)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (16639512..16755501)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (16526058..16642648)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene trimethylguanosine synthase 1 Neighboring gene sterol carrier protein 2, pseudogene 1 Neighboring gene uncharacterized LOC134486916 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene small nucleolar RNA, C/D box 54 Neighboring gene ribosomal protein S20

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables SH3 domain binding ISO
Inferred from Sequence Orthology
more info
 
enables enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
 
enables ephrin receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables gamma-tubulin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables glycosphingolipid binding IPI
Inferred from Physical Interaction
more info
PubMed 
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 IDA
Inferred from Direct Assay
more info
PubMed 
enables kinase activity TAS
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 ISO
Inferred from Sequence Orthology
more info
 
enables phosphatidylinositol 3-kinase activator activity ISO
Inferred from Sequence Orthology
more info
 
enables phosphoprotein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables phosphorylation-dependent protein binding ISO
Inferred from Sequence Orthology
more info
 
enables platelet-derived growth factor receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase activity ISO
Inferred from Sequence Orthology
more info
 
enables protein tyrosine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables protein tyrosine kinase activity ISO
Inferred from Sequence Orthology
more info
 
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein-containing complex binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
enables scaffold protein binding ISO
Inferred from Sequence Orthology
more info
 
enables signaling receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables signaling receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transmembrane transporter binding ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in B cell homeostasis ISO
Inferred from Sequence Orthology
more info
 
involved_in B cell homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within B cell receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in C-X-C chemokine receptor CXCR4 signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in DNA damage checkpoint signaling ISO
Inferred from Sequence Orthology
more info
 
involved_in DNA damage response IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
 
involved_in Fc receptor mediated inhibitory signaling pathway ISO
Inferred from Sequence Orthology
more info
 
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in Fc receptor mediated stimulatory signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within autophagy ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell morphogenesis ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to heat IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to retinoic acid ISO
Inferred from Sequence Orthology
more info
 
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in dendritic cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in eosinophil differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in erythrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in erythrocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in fatty acid transport ISO
Inferred from Sequence Orthology
more info
 
involved_in hematopoietic progenitor cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in hemopoiesis ISO
Inferred from Sequence Orthology
more info
 
involved_in histamine secretion by mast cell IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in immune response-regulating cell surface receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in immune response-regulating cell surface receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in interleukin-5-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within intracellular signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in lipopolysaccharide-mediated signaling pathway ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of ERK1 and ERK2 cascade ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cell population proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of intracellular signal transduction ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of toll-like receptor 4 signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within neuroinflammatory response ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron projection development IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within neuron projection development ISO
Inferred from Sequence Orthology
more info
 
involved_in oligodendrocyte development IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within peptidyl-tyrosine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in peptidyl-tyrosine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in platelet degranulation ISO
Inferred from Sequence Orthology
more info
 
involved_in platelet degranulation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of Fc receptor mediated stimulatory signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of MAPK cascade ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
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 IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of mast cell proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of oligodendrocyte progenitor proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within protein autophosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in protein autophosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of B cell apoptotic process ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cytokine production ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cytokine production ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of erythrocyte differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of erythrocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of inflammatory response ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mast cell activation ISO
Inferred from Sequence Orthology
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 ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mast cell degranulation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of monocyte chemotaxis ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of platelet aggregation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of platelet aggregation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of release of sequestered calcium ion into cytosol IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of release of sequestered calcium ion into cytosol ISO
Inferred from Sequence Orthology
more info
 
involved_in response to amino acid IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to axon injury IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to carbohydrate IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to hormone ISO
Inferred from Sequence Orthology
more info
 
involved_in response to hormone ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in response to insulin IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to organic cyclic compound IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to peptide hormone IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to sterol depletion IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to toxic substance IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to xenobiotic stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in tolerance induction to self antigen IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in tolerance induction to self antigen ISO
Inferred from Sequence Orthology
more info
 
involved_in tolerance induction to self antigen ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in toll-like receptor 4 signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in adherens junction IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in cytoplasmic side of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
part_of integrin alpha2-beta1 complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
located_in membrane raft ISO
Inferred from Sequence Orthology
more info
 
located_in mitochondrial crista IDA
Inferred from Direct Assay
more info
PubMed 
located_in mitochondrial membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
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 
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in postsynaptic specialization, intracellular component IDA
Inferred from Direct Assay
more info
PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
tyrosine-protein kinase Lyn
Names
Yamaguchi sarcoma viral (v-yes-1) oncogene homolog
lyn protein non-receptor kinase
v-yes-1 Yamaguchi sarcoma viral related oncogene homolog
NP_001104568.1
NP_110484.1
XP_006237896.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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.

mRNA and Protein(s)

  1. NM_001111098.1NP_001104568.1  tyrosine-protein kinase Lyn isoform B

    See identical proteins and their annotated locations for NP_001104568.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region, compared to variant 1, resulting in a shorter protein (isoform B).
    Source sequence(s)
    AF000301, JAXUCZ010000005
    UniProtKB/TrEMBL
    A6JFK9
    Conserved Domains (4) 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
    pfam07714
    Location:226476
    Pkinase_Tyr; Protein tyrosine kinase
  2. NM_030857.2NP_110484.1  tyrosine-protein kinase Lyn isoform A

    See identical proteins and their annotated locations for NP_110484.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (A).
    Source sequence(s)
    AF000300, AF000301, JAXUCZ010000005
    UniProtKB/Swiss-Prot
    Q07014, Q63320
    UniProtKB/TrEMBL
    A6JFK8
    Related
    ENSRNOP00000011130.4, ENSRNOT00000011130.7
    Conserved Domains (4) 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
    pfam07714
    Location:247497
    Pkinase_Tyr; Protein tyrosine kinase

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086023.1 Reference GRCr8

    Range
    21437127..21553097
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006237834.5XP_006237896.1  tyrosine-protein kinase Lyn isoform X1

    See identical proteins and their annotated locations for XP_006237896.1

    UniProtKB/Swiss-Prot
    Q07014, Q63320
    UniProtKB/TrEMBL
    A6JFK8
    Conserved Domains (4) 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
    pfam07714
    Location:247497
    Pkinase_Tyr; Protein tyrosine kinase