Lyn (LYN proto-oncogene, Src family tyrosine kinase) - Rat Genome Database

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Gene: Lyn (LYN proto-oncogene, Src family tyrosine kinase) Rattus norvegicus
Analyze
Symbol: Lyn
Name: LYN proto-oncogene, Src family tyrosine kinase
RGD ID: 621017
Description: 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); PARTICIPATES IN eicosanoid signaling pathway; ephrin - ephrin receptor bidirectional signaling axis; erythropoietin signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2-ethoxyethanol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: lyn protein non-receptor kinase; p53Lyn; p56Lyn; tyrosine-protein kinase Lyn; v-yes-1 Yamaguchi sarcoma viral related oncogene homolog; Yamaguchi sarcoma viral (v-yes-1) oncogene homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Vetf1 Vetf3
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2516,639,512 - 16,755,501 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl516,639,466 - 16,756,868 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx518,881,335 - 18,996,656 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0520,479,822 - 20,595,148 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0520,231,313 - 20,346,636 (+)NCBIRnor_WKY
Rnor_6.0516,526,058 - 16,642,648 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl516,526,058 - 16,642,648 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0521,307,094 - 21,422,842 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4516,933,111 - 17,054,564 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1516,933,105 - 17,054,560 (+)NCBI
Celera516,004,013 - 16,119,589 (+)NCBICelera
RH 3.4 Map586.9RGD
Cytogenetic Map5q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(R,R,R)-alpha-tocopherol  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-ethoxyethanol  (EXP)
2-methoxyethanol  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
acetylsalicylic acid  (ISO)
afimoxifene  (ISO)
all-trans-retinoic acid  (ISO)
aluminium trifluoride  (ISO)
alvocidib  (ISO)
ammonium chloride  (EXP)
antigen  (ISO)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzamide  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
bortezomib  (ISO)
bosutinib  (EXP)
butan-1-ol  (ISO)
calcitriol  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
Cuprizon  (EXP)
cytarabine  (ISO)
DDT  (EXP)
dexamethasone  (EXP,ISO)
diazinon  (ISO)
dichlorine  (EXP)
diethylstilbestrol  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
flutamide  (EXP)
fulvestrant  (ISO)
gentamycin  (EXP)
glutathione  (ISO)
Honokiol  (ISO)
indometacin  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
leflunomide  (EXP)
lipopolysaccharide  (ISO)
manganese(II) chloride  (ISO)
masitinib  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
mycophenolic acid  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
nickel atom  (ISO)
nickel dichloride  (EXP)
nickel sulfate  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
panobinostat  (ISO)
paracetamol  (ISO)
phenylmercury acetate  (ISO)
phosgene  (ISO)
pirinixic acid  (ISO)
ponatinib  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
Soman  (EXP)
tamibarotene  (ISO)
tamoxifen  (ISO)
taurine  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adaptive immune response  (IEA)
B cell homeostasis  (ISO,ISS)
B cell receptor signaling pathway  (ISO)
C-X-C chemokine receptor CXCR4 signaling pathway  (ISO)
cellular response to extracellular stimulus  (IEP)
cellular response to heat  (IEP)
cellular response to retinoic acid  (ISO)
cytokine production  (IMP)
dendritic cell differentiation  (IBA,ISO,ISS)
DNA damage response  (IBA,ISO)
eosinophil differentiation  (ISO)
erythrocyte differentiation  (ISO,ISS)
Fc receptor mediated inhibitory signaling pathway  (ISO,ISS)
Fc receptor mediated stimulatory signaling pathway  (IBA,ISO,ISS)
hematopoietic progenitor cell differentiation  (ISO)
hemopoiesis  (ISO)
histamine secretion by mast cell  (IMP)
immune response-regulating cell surface receptor signaling pathway  (ISO,ISS)
innate immune response  (IBA)
interleukin-5-mediated signaling pathway  (ISO)
intracellular signal transduction  (ISO)
lipopolysaccharide-mediated signaling pathway  (ISO,ISS)
negative regulation of B cell proliferation  (IBA,ISO)
negative regulation of cell population proliferation  (ISO,ISS)
negative regulation of ERK1 and ERK2 cascade  (ISO,ISS)
negative regulation of intracellular signal transduction  (ISO,ISS)
negative regulation of MAP kinase activity  (ISO,ISS)
negative regulation of mast cell proliferation  (IBA,ISO,ISS)
negative regulation of myeloid leukocyte differentiation  (ISO)
negative regulation of protein phosphorylation  (ISO,ISS)
negative regulation of toll-like receptor 2 signaling pathway  (ISO,ISS)
negative regulation of toll-like receptor 4 signaling pathway  (ISO,ISS)
neuron projection development  (IBA,ISO)
oligodendrocyte development  (IEP)
peptidyl-tyrosine phosphorylation  (ISO)
platelet degranulation  (IBA,ISO,ISS)
positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process  (ISO)
positive regulation of cell migration  (ISO)
positive regulation of cell population proliferation  (ISO,ISS)
positive regulation of dendritic cell apoptotic process  (IBA,ISO,ISS)
positive regulation of Fc receptor mediated stimulatory signaling pathway  (IMP)
positive regulation of glial cell proliferation  (IDA)
positive regulation of mast cell proliferation  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of oligodendrocyte progenitor proliferation  (IMP)
positive regulation of phosphatidylinositol 3-kinase activity  (ISO)
positive regulation of phosphorylation  (IMP)
positive regulation of protein phosphorylation  (ISO)
positive regulation of stress-activated protein kinase signaling cascade  (ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (ISO,ISS)
protein autophosphorylation  (ISO)
protein phosphorylation  (IBA,ISO)
regulation of B cell apoptotic process  (IBA,ISO)
regulation of B cell receptor signaling pathway  (IBA,ISO,ISS)
regulation of cell adhesion mediated by integrin  (ISO)
regulation of cytokine production  (ISO,ISS)
regulation of ERK1 and ERK2 cascade  (ISO,ISS)
regulation of erythrocyte differentiation  (ISO,ISS)
regulation of inflammatory response  (ISO)
regulation of mast cell activation  (ISO,ISS)
regulation of mast cell degranulation  (IBA,ISO,ISS)
regulation of monocyte chemotaxis  (ISO)
regulation of platelet aggregation  (IBA,ISO,ISS)
regulation of release of sequestered calcium ion into cytosol  (IMP,ISO)
response to amino acid  (IEP)
response to axon injury  (IEP)
response to carbohydrate  (IEP)
response to hormone  (ISO,ISS)
response to insulin  (IEP)
response to organic cyclic compound  (IEP)
response to peptide hormone  (IEP)
response to sterol depletion  (IEP)
response to toxic substance  (IEP)
response to xenobiotic stimulus  (IEP)
tolerance induction to self antigen  (IBA,ISO,ISS)
toll-like receptor 4 signaling pathway  (ISO)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA,ISO)

References

References - curated
# Reference Title Reference Citation
1. Interaction of transient receptor potential vanilloid 4, integrin, and SRC tyrosine kinase in mechanical hyperalgesia. Alessandri-Haber N, etal., J Neurosci. 2008 Jan 30;28(5):1046-57.
2. Phospholipid scramblase 1 modulates a selected set of IgE receptor-mediated mast cell responses through LAT-dependent pathway. Amir-Moazami O, etal., J Biol Chem. 2008 Sep 12;283(37):25514-23. Epub 2008 Jun 25.
3. Short-term leptin-dependent inhibition of hepatic gluconeogenesis is mediated by insulin receptor substrate-2. Anderwald C, etal., Mol Endocrinol 2002 Jul;16(7):1612-28.
4. Integrins direct Src family kinases to regulate distinct phases of oligodendrocyte development. Colognato H, etal., J Cell Biol. 2004 Oct 25;167(2):365-75.
5. Real-time cross-correlation image analysis of early events in IgE receptor signaling. Das R, etal., Biophys J. 2008 Jun;94(12):4996-5008. Epub 2008 Mar 7.
6. Protein tyrosine kinase p53/p56(lyn) forms complexes with gamma-tubulin in rat basophilic leukemia cells. Draberova L, et al., Int Immunol. 1999 Nov;11(11):1829-39.
7. Lyn- and ERK-mediated vs. Ca2+ -mediated neutrophil O responses with thermal injury. Fazal N, etal., Am J Physiol Cell Physiol. 2002 Nov;283(5):C1469-79.
8. Targeting of MIST to Src-family kinases via SKAP55-SLAP-130 adaptor complex in mast cells. Fujii Y, etal., FEBS Lett 2003 Apr 10;540(1-3):111-6.
9. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
11. Fosinopril and carvedilol reverse hypertrophy and change the levels of protein kinase C epsilon and components of its signaling complex. He H, etal., Cardiovasc Drugs Ther. 2006 Aug;20(4):259-71.
12. Roles of C-terminal Src kinase in the initiation and the termination of the high affinity IgE receptor-mediated signaling. Honda Z, etal., J Biol Chem. 1997 Oct 10;272(41):25753-60.
13. Interactions between Src family protein tyrosine kinases and PSD-95. Kalia LV and Salter MW, Neuropharmacology. 2003 Nov;45(6):720-8.
14. The phosphatidylinositol 3-kinase/Akt signaling pathway modulates the endocrine differentiation of trophoblast cells. Kamei T, etal., Mol Endocrinol 2002 Jul;16(7):1469-81.
15. Involvement of gangliosides in glycosylphosphatidylinositol-anchored neuronal cell adhesion molecule TAG-1 signaling in lipid rafts. Kasahara K, etal., J Biol Chem. 2000 Nov 3;275(44):34701-9.
16. Flotillin-1 regulates IgE receptor-mediated signaling in rat basophilic leukemia (RBL-2H3) cells. Kato N, etal., J Immunol. 2006 Jul 1;177(1):147-54.
17. Downstream signaling molecules bind to different phosphorylated immunoreceptor tyrosine-based activation motif (ITAM) peptides of the high affinity IgE receptor. Kimura T, etal., J Biol Chem. 1996 Nov 1;271(44):27962-8.
18. Gene expression profiling of the rat endometriosis model. Konno R, etal., Am J Reprod Immunol. 2007 Oct;58(4):330-43.
19. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
20. Negative regulation of Lyn protein-tyrosine kinase by c-Cbl ubiquitin-protein ligase in Fc epsilon RI-mediated mast cell activation. Kyo S, etal., Genes Cells. 2003 Oct;8(10):825-36.
21. Overcoming the signaling defect of Lyn-sequestering, signal-curtailing FcepsilonRI dimers: aggregated dimers can dissociate from Lyn and form signaling complexes with Syk. Lara M, etal., J Immunol. 2001 Oct 15;167(8):4329-37.
22. The inositol 5'-phosphatase SHIP-2 negatively regulates IgE-induced mast cell degranulation and cytokine production. Leung WH and Bolland S, J Immunol. 2007 Jul 1;179(1):95-102.
23. Adaptor protein 3BP2 is a potential ligand of Src homology 2 and 3 domains of Lyn protein-tyrosine kinase. Maeno K, etal., J Biol Chem. 2003 Jul 4;278(27):24912-20. Epub 2003 Apr 22.
24. L-NAME reverses quinolinic acid-induced toxicity in rat corticostriatal slices: Involvement of src family kinases. Mallozzi C, etal., J Neurosci Res. 2007 Sep;85(12):2770-7.
25. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
26. Src family tyrosine kinase p53/56lyn, a serine kinase and Fc epsilon RI associate with alpha-galactosyl derivatives of ganglioside GD1b in rat basophilic leukemia RBL-2H3 cells. Minoguchi K, etal., J Biol Chem. 1994 Feb 18;269(7):5249-54.
27. Src family tyrosine kinase Lyn binds several proteins including paxillin in rat basophilic leukemia cells. Minoguchi K, etal., Mol Immunol. 1994 May;31(7):519-29.
28. Regulation of lipid raft proteins by glimepiride- and insulin-induced glycosylphosphatidylinositol-specific phospholipase C in rat adipocytes. Muller G, etal., Biochem Pharmacol. 2005 Mar 1;69(5):761-80. Epub 2005 Jan 25.
29. L-DOPA treatment of parkinsonian rats changes the expression of Src, Lyn and PKC kinases. Napolitano M, etal., Neurosci Lett. 2006 May 8;398(3):211-4. Epub 2006 Mar 9.
30. Thy-1 molecule associates with protein tyrosine kinase(s) in rat mesangial cells. Narisawa-Saito M, etal., Clin Exp Immunol. 1996 Oct;106(1):86-90.
31. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
32. The Src family kinase, Lyn, is activated in pancreatic acinar cells by gastrointestinal hormones/neurotransmitters and growth factors which stimulate its association with numerous other signaling molecules. Pace A, etal., Biochim Biophys Acta. 2006 Apr;1763(4):356-65. Epub 2006 Apr 7.
33. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
34. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
35. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
36. Rapid dephosphorylation of the GTPase dynamin after FcepsilonRI aggregation in a rat mast cell line. Pullar CE, etal., J Immunol. 1996 Aug 1;157(3):1226-32.
37. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
38. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
39. The cDNAs encoding two forms of the LYN protein tyrosine kinase are expressed in rat mast cells and human myeloid cells. Rider LG, etal., Gene 1994 Jan 28;138(1-2):219-22.
40. Characterization and location of Src-dependent tyrosine phosphorylation in rat brain mitochondria. Salvi M, etal., Biochim Biophys Acta 2002 Apr 3;1589(2):181-95.
41. Critical role for cholesterol in Lyn-mediated tyrosine phosphorylation of FcepsilonRI and their association with detergent-resistant membranes. Sheets ED, etal., J Cell Biol. 1999 May 17;145(4):877-87.
42. Tyrosine phosphorylation-dependent and -independent associations of protein kinase C-delta with Src family kinases in the RBL-2H3 mast cell line: regulation of Src family kinase activity by protein kinase C-delta. Song JS, etal., Oncogene. 1998 Jul 2;16(26):3357-68.
43. The Src family kinases, Fgr, Fyn, Lck, and Lyn, colocalize with coated membranes in platelets. Stenberg PE, etal., Blood. 1997 Apr 1;89(7):2384-93.
44. Lyn tyrosine kinase is required for P2X(4) receptor upregulation and neuropathic pain after peripheral nerve injury. Tsuda M, etal., Glia. 2008 Jan 1;56(1):50-8.
45. Specific proto-oncogenic tyrosine kinases of src family are enriched in cell-to-cell adherens junctions where the level of tyrosine phosphorylation is elevated. Tsukita S, et al., J Cell Biol. 1991 May;113(4):867-79.
46. The unique domain as the site on Lyn kinase for its constitutive association with the high affinity receptor for IgE. Vonakis BM, etal., J Biol Chem 1997 Sep 19;272(38):24072-80.
47. Regulation of rat basophilic leukemia-2H3 mast cell secretion by a constitutive Lyn kinase interaction with the high affinity IgE receptor (Fc epsilon RI). Vonakis BM, etal., J Immunol. 2005 Oct 1;175(7):4543-54.
48. AMPA protects cultured neurons against glutamate excitotoxicity through a phosphatidylinositol 3-kinase-dependent activation in extracellular signal-regulated kinase to upregulate BDNF gene expression. Wu X, etal., J Neurochem. 2004 Aug;90(4):807-18.
49. The adapter molecule Gab2 regulates Fc epsilon RI-mediated signal transduction in mast cells. Xie ZH, etal., J Immunol. 2002 May 1;168(9):4682-91.
50. SH2 domain-containing inositol polyphosphate 5'-phosphatase is the main mediator of the inhibitory action of the mast cell function-associated antigen. Xu R, etal., J Immunol 2001 Dec 1;167(11):6394-402.
Additional References at PubMed
PMID:1381360   PMID:7499277   PMID:7526393   PMID:7682714   PMID:8128248   PMID:8627181   PMID:8761480   PMID:9000133   PMID:9064343   PMID:9252121   PMID:9799234   PMID:10594694  
PMID:10713104   PMID:10748115   PMID:10861086   PMID:10872802   PMID:10891478   PMID:11110698   PMID:11137137   PMID:11313396   PMID:11358993   PMID:11435302   PMID:11448999   PMID:11517336  
PMID:11672542   PMID:11744621   PMID:11782428   PMID:11826099   PMID:12504103   PMID:12538589   PMID:12670955   PMID:12923167   PMID:14525964   PMID:14604964   PMID:14726379   PMID:14769131  
PMID:15173188   PMID:16034130   PMID:16116174   PMID:16249387   PMID:16272347   PMID:16467205   PMID:16791881   PMID:16921024   PMID:17462920   PMID:17910947   PMID:17977829   PMID:18250449  
PMID:18682390   PMID:18697750   PMID:18802065   PMID:18817770   PMID:19064729   PMID:19118221   PMID:19356729   PMID:19832701   PMID:20189992   PMID:20385881   PMID:20605918   PMID:20645409  
PMID:22871113   PMID:23376485   PMID:23509253   PMID:23533145   PMID:24217950   PMID:25289695   PMID:28098138  


Genomics

Comparative Map Data
Lyn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2516,639,512 - 16,755,501 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl516,639,466 - 16,756,868 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx518,881,335 - 18,996,656 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0520,479,822 - 20,595,148 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0520,231,313 - 20,346,636 (+)NCBIRnor_WKY
Rnor_6.0516,526,058 - 16,642,648 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl516,526,058 - 16,642,648 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0521,307,094 - 21,422,842 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4516,933,111 - 17,054,564 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1516,933,105 - 17,054,560 (+)NCBI
Celera516,004,013 - 16,119,589 (+)NCBICelera
RH 3.4 Map586.9RGD
Cytogenetic Map5q12NCBI
LYN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38855,879,835 - 56,014,169 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl855,879,835 - 56,014,169 (+)EnsemblGRCh38hg38GRCh38
GRCh37856,792,394 - 56,926,728 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36856,954,926 - 57,085,685 (+)NCBINCBI36Build 36hg18NCBI36
Build 34856,954,925 - 57,085,685NCBI
Celera852,784,229 - 52,915,775 (+)NCBICelera
Cytogenetic Map8q12.1NCBI
HuRef852,260,576 - 52,393,067 (+)NCBIHuRef
CHM1_1856,844,030 - 56,976,630 (+)NCBICHM1_1
T2T-CHM13v2.0856,256,887 - 56,391,325 (+)NCBIT2T-CHM13v2.0
Lyn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3943,676,865 - 3,791,612 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl43,678,115 - 3,813,122 (+)EnsemblGRCm39 Ensembl
GRCm3843,678,068 - 3,791,612 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl43,678,115 - 3,813,122 (+)EnsemblGRCm38mm10GRCm38
MGSCv3743,605,268 - 3,718,759 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3643,205,785 - 3,233,451 (+)NCBIMGSCv36mm8
MGSCv3643,605,272 - 3,718,759 (+)NCBIMGSCv36mm8
Celera43,624,290 - 3,748,767 (+)NCBICelera
Cytogenetic Map4A1NCBI
cM Map42.05NCBI
Lyn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545415,035,979 - 15,111,142 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545415,025,967 - 15,111,142 (+)NCBIChiLan1.0ChiLan1.0
LYN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1847,254,385 - 47,391,009 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0852,318,497 - 52,455,741 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1849,755,745 - 49,825,287 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl849,755,708 - 49,825,287 (+)Ensemblpanpan1.1panPan2
LYN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1297,367,617 - 7,448,862 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl297,332,684 - 7,448,507 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha297,646,390 - 7,761,519 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0297,407,120 - 7,522,482 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl297,407,106 - 7,522,223 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1297,421,443 - 7,536,515 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0297,554,220 - 7,669,329 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0297,830,951 - 7,946,216 (+)NCBIUU_Cfam_GSD_1.0
Lyn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530372,085,767 - 72,205,721 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364962,637,958 - 2,700,055 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049364962,578,598 - 2,698,165 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LYN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl475,793,492 - 75,903,496 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1475,793,273 - 75,903,710 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2482,711,087 - 82,843,221 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LYN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1851,919,656 - 52,057,376 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl851,919,808 - 52,057,959 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603989,742,858 - 89,881,060 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lyn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248864,027,178 - 4,168,902 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248864,029,318 - 4,168,797 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lyn
827 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:189
Count of miRNA genes:129
Interacting mature miRNAs:157
Transcripts:ENSRNOT00000011130
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
2312562Pur18Proteinuria QTL 182.60.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5213896532656739Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5384401826141981Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5384401847869213Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5511215947171491Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)5818750118616199Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat

Markers in Region
D5Rat206  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0516,634,965 - 16,635,349NCBIRnor6.0
Rnor_5.0521,415,159 - 21,415,543UniSTSRnor5.0
RGSC_v3.4517,046,881 - 17,047,265UniSTSRGSC3.4
RGSC_v3.1517,046,880 - 17,047,265RGD
Celera516,111,906 - 16,112,290UniSTS
Cytogenetic Map5q12UniSTS
D5Got317  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2516,749,066 - 16,749,249 (+)MAPPERmRatBN7.2
Rnor_6.0516,636,216 - 16,636,396NCBIRnor6.0
Rnor_5.0521,416,410 - 21,416,590UniSTSRnor5.0
RGSC_v3.4517,048,132 - 17,048,312UniSTSRGSC3.4
Celera516,113,157 - 16,113,337UniSTS
Cytogenetic Map5q12UniSTS
RH140554  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2516,754,625 - 16,754,836 (+)MAPPERmRatBN7.2
Rnor_6.0516,641,773 - 16,641,983NCBIRnor6.0
Rnor_5.0521,421,967 - 21,422,177UniSTSRnor5.0
RGSC_v3.4517,053,689 - 17,053,899UniSTSRGSC3.4
Celera516,118,714 - 16,118,924UniSTS
RH 3.4 Map590.6UniSTS
Cytogenetic Map5q12UniSTS
RH94837  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2516,754,362 - 16,754,500 (+)MAPPERmRatBN7.2
Rnor_6.0516,641,510 - 16,641,647NCBIRnor6.0
Rnor_5.0521,421,704 - 21,421,841UniSTSRnor5.0
RGSC_v3.4517,053,426 - 17,053,563UniSTSRGSC3.4
Celera516,118,451 - 16,118,588UniSTS
RH 3.4 Map586.9UniSTS
Cytogenetic Map5q12UniSTS
RH94838  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2516,754,827 - 16,755,000 (+)MAPPERmRatBN7.2
Rnor_6.0516,641,975 - 16,642,147NCBIRnor6.0
Rnor_5.0521,422,169 - 21,422,341UniSTSRnor5.0
RGSC_v3.4517,053,891 - 17,054,063UniSTSRGSC3.4
Celera516,118,916 - 16,119,088UniSTS
Cytogenetic Map5q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 1 1 10 35 30 11 1
Low 7 10 64 11 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000011130   ⟹   ENSRNOP00000011130
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl516,639,466 - 16,756,868 (+)Ensembl
Rnor_6.0 Ensembl516,526,058 - 16,642,648 (+)Ensembl
RefSeq Acc Id: NM_001111098   ⟹   NP_001104568
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2516,639,512 - 16,755,501 (+)NCBI
Rnor_6.0516,526,058 - 16,642,648 (+)NCBI
Rnor_5.0521,307,094 - 21,422,842 (+)NCBI
RGSC_v3.4516,933,111 - 17,054,564 (+)RGD
Celera516,004,013 - 16,119,589 (+)RGD
Sequence:
RefSeq Acc Id: NM_030857   ⟹   NP_110484
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2516,639,512 - 16,755,501 (+)NCBI
Rnor_6.0516,526,058 - 16,642,648 (+)NCBI
Rnor_5.0521,307,094 - 21,422,842 (+)NCBI
RGSC_v3.4516,933,111 - 17,054,564 (+)RGD
Celera516,004,013 - 16,119,589 (+)RGD
Sequence:
RefSeq Acc Id: XM_006237834   ⟹   XP_006237896
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2516,695,773 - 16,754,954 (+)NCBI
Rnor_6.0516,582,849 - 16,642,101 (+)NCBI
Rnor_5.0521,307,094 - 21,422,842 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_110484   ⟸   NM_030857
- Peptide Label: isoform A
- UniProtKB: Q63320 (UniProtKB/Swiss-Prot),   Q07014 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001104568   ⟸   NM_001111098
- Peptide Label: isoform B
- UniProtKB: Q07014 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006237896   ⟸   XM_006237834
- Peptide Label: isoform X1
- UniProtKB: Q63320 (UniProtKB/Swiss-Prot),   Q07014 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000011130   ⟸   ENSRNOT00000011130
Protein Domains
Protein kinase   SH2   SH3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q07014-F1-model_v2 AlphaFold Q07014 1-512 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13693549
Promoter ID:EPDNEW_R4074
Type:initiation region
Name:Lyn_1
Description:LYN proto-oncogene, Src family tyrosine kinase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0516,526,015 - 16,526,075EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621017 AgrOrtholog
BioCyc Gene G2FUF-42124 BioCyc
Ensembl Genes ENSRNOG00000008180 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000011130 ENTREZGENE
  ENSRNOP00000011130.4 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000011130 ENTREZGENE
  ENSRNOT00000011130.6 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.505.10 UniProtKB/Swiss-Prot
  SH3 Domains UniProtKB/Swiss-Prot
  Transferase(Phosphotransferase) domain 1 UniProtKB/Swiss-Prot
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot
  Lyn_SH2 UniProtKB/Swiss-Prot
  Lyn_SH3 UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/Swiss-Prot
  SH2 UniProtKB/Swiss-Prot
  SH2_dom_sf UniProtKB/Swiss-Prot
  SH3-like_dom_sf UniProtKB/Swiss-Prot
  SH3_domain UniProtKB/Swiss-Prot
  Tyr_kinase_AS UniProtKB/Swiss-Prot
  Tyr_kinase_cat_dom UniProtKB/Swiss-Prot
KEGG Report rno:81515 UniProtKB/Swiss-Prot
NCBI Gene 81515 ENTREZGENE
PANTHER TYROSINE-PROTEIN KINASE UniProtKB/Swiss-Prot
  TYROSINE-PROTEIN KINASE LYN UniProtKB/Swiss-Prot
Pfam Pkinase_Tyr UniProtKB/Swiss-Prot
  SH2 UniProtKB/Swiss-Prot
  SH3_1 UniProtKB/Swiss-Prot
PhenoGen Lyn PhenoGen
PRINTS SH2DOMAIN UniProtKB/Swiss-Prot
  SH3DOMAIN UniProtKB/Swiss-Prot
  TYRKINASE UniProtKB/Swiss-Prot
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_TYR UniProtKB/Swiss-Prot
  SH2 UniProtKB/Swiss-Prot
  SH3 UniProtKB/Swiss-Prot
SMART SH2 UniProtKB/Swiss-Prot
  SH3 UniProtKB/Swiss-Prot
  TyrKc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot
  SSF55550 UniProtKB/Swiss-Prot
  SSF56112 UniProtKB/Swiss-Prot
UniProt LYN_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q63320 ENTREZGENE
UniProt Secondary Q63320 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-07-10 Lyn  LYN proto-oncogene, Src family tyrosine kinase  Lyn  v-yes-1 Yamaguchi sarcoma viral related oncogene homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Lyn  v-yes-1 Yamaguchi sarcoma viral related oncogene homolog  Lyn  Yamaguchi sarcoma viral (v-yes-1) oncogene homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Lyn  Yamaguchi sarcoma viral (v-yes-1) oncogene homolog    lyn protein non-receptor kinase  Name updated 1299863 APPROVED
2002-08-07 Lyn  lyn protein non-receptor kinase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction interacts with PI3-K 632179
gene_process mediates PI3-K/Akt signaling pathway 632179
gene_process mediates PI3-K/Akt signaling pathway 632179