Syk (spleen associated tyrosine kinase) - Rat Genome Database

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Gene: Syk (spleen associated tyrosine kinase) Rattus norvegicus
Analyze
Symbol: Syk
Name: spleen associated tyrosine kinase
RGD ID: 3796
Description: Exhibits protein domain specific binding activity; protein tyrosine kinase activity; and ubiquitin protein ligase binding activity. Involved in positive regulation of mast cell degranulation and protein autophosphorylation. Predicted to localize to several cellular components, including early phagosome; extrinsic component of cytoplasmic side of plasma membrane; and plasma membrane signaling receptor complex. Used to study anti-basement membrane glomerulonephritis. Orthologous to human SYK (spleen associated tyrosine kinase); PARTICIPATES IN eicosanoid signaling pathway; FasL mediated signaling pathway; Fc epsilon receptor mediated signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,6-dinitrotoluene; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: p72syk; spleen tyrosine kinase; tyrosine-protein kinase SYK
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21712,604,615 - 12,678,437 (-)NCBI
Rnor_6.0 Ensembl1712,614,311 - 12,669,573 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01712,614,311 - 12,669,568 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01714,703,903 - 14,759,160 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41718,440,672 - 18,498,001 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11718,440,671 - 18,498,006 (-)NCBI
Celera1712,367,624 - 12,424,213 (-)NCBICelera
RH 3.4 Map17126.2RGD
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,6-dinitrotoluene  (EXP)
2-butoxyethanol  (ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP,ISO)
ammonium chloride  (EXP)
antigen  (ISO)
antirheumatic drug  (ISO)
apigenin  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucan  (ISO)
biochanin A  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
cangrelor  (ISO)
cisplatin  (ISO)
citalopram  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
flavonoids  (EXP)
genistein  (ISO)
glyphosate  (ISO)
hydrogen peroxide  (ISO)
isoprenaline  (ISO)
leukotriene C4  (ISO)
lipopolysaccharide  (ISO)
mercury dichloride  (ISO)
methyl methanesulfonate  (ISO)
nickel atom  (ISO)
nitroglycerin  (EXP)
ochratoxin A  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
peptidoglycan  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
quercetin  (ISO)
quercetin 4'-O-beta-D-glucopyranoside  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
zinc oxide  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of JUN kinase activity  (IEA,ISO)
activation of MAPK activity  (ISO)
adaptive immune response  (IBA,IEA,ISS)
angiogenesis  (IEA)
B cell receptor signaling pathway  (IBA,IEA,ISO,ISS)
beta selection  (IEA,ISO)
blood vessel morphogenesis  (IEA,ISO,ISS)
cell differentiation  (IBA)
cell surface receptor signaling pathway  (ISO)
cellular response to low-density lipoprotein particle stimulus  (IEA,ISO,ISS)
cellular response to molecule of fungal origin  (IEA,ISO,ISS)
collagen-activated tyrosine kinase receptor signaling pathway  (IEA,ISO)
defense response to bacterium  (IEA,ISO,ISS)
enzyme linked receptor protein signaling pathway  (ISO)
innate immune response  (IBA,IEA,ISO,ISS)
integrin-mediated signaling pathway  (IEA,ISO,ISS)
interleukin-3-mediated signaling pathway  (IEA,ISO,ISS)
intracellular signal transduction  (IEA,ISO)
leukocyte activation involved in immune response  (ISO,ISS)
leukocyte cell-cell adhesion  (IEA,ISO,ISS)
leukotriene biosynthetic process  (IEA,ISO)
lymph vessel development  (IEA,ISO,ISS)
macrophage activation involved in immune response  (IBA,IEA,ISO,ISS)
neutrophil activation involved in immune response  (IBA,IEA,ISO,ISS)
neutrophil chemotaxis  (IEA,ISO,ISS)
peptidyl-serine phosphorylation  (IEA,ISO)
peptidyl-tyrosine phosphorylation  (IEA,ISO,ISS)
positive regulation of alpha-beta T cell differentiation  (IEA,ISO)
positive regulation of alpha-beta T cell proliferation  (IBA,IEA,ISO)
positive regulation of B cell differentiation  (IBA,IEA,ISO)
positive regulation of bone resorption  (IEA,ISO,ISS)
positive regulation of calcium-mediated signaling  (IEA,ISO)
positive regulation of cell adhesion mediated by integrin  (IBA,IEA,ISO,ISS)
positive regulation of cold-induced thermogenesis  (ISO,ISS)
positive regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IEA,ISO)
positive regulation of cytokine production  (ISO)
positive regulation of gamma-delta T cell differentiation  (IEA,ISO)
positive regulation of granulocyte macrophage colony-stimulating factor production  (IEA,ISO)
positive regulation of interleukin-10 production  (IEA,ISO)
positive regulation of interleukin-12 production  (IEA,ISO)
positive regulation of interleukin-3 production  (IEA,ISO)
positive regulation of interleukin-4 production  (IEA,ISO,ISS)
positive regulation of interleukin-6 production  (IEA,ISO)
positive regulation of interleukin-8 production  (IEA,ISO)
positive regulation of killing of cells of other organism  (IEA,ISO)
positive regulation of mast cell degranulation  (IBA,IEA,IMP,ISO)
positive regulation of monocyte chemotactic protein-1 production  (IEA,ISO)
positive regulation of peptidyl-tyrosine autophosphorylation  (ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (IEA,ISO)
positive regulation of protein-containing complex assembly  (IEA,ISO)
positive regulation of receptor internalization  (IEA,ISO)
positive regulation of superoxide anion generation  (IEA,ISO)
positive regulation of tumor necrosis factor production  (IEA,ISO)
positive regulation of type I interferon production  (IEA,ISO)
protein autophosphorylation  (IDA,IEA,ISO)
protein import into nucleus  (ISO)
protein phosphorylation  (ISO)
receptor internalization  (IEA,ISO,ISS)
regulation of arachidonic acid secretion  (IEA,ISO,ISS)
regulation of DNA-binding transcription factor activity  (ISO)
regulation of ERK1 and ERK2 cascade  (IEA,ISO,ISS)
regulation of immune response  (IDA)
regulation of neutrophil degranulation  (IEA,ISO,ISS)
regulation of phagocytosis  (IEA,ISO,ISS)
regulation of platelet activation  (ISO,ISS)
regulation of platelet aggregation  (IBA,IEA,ISO,ISS)
regulation of superoxide anion generation  (ISO,ISS)
regulation of tumor necrosis factor-mediated signaling pathway  (IEA,ISO)
serotonin secretion  (ISO)
serotonin secretion by platelet  (IEA,ISO,ISS)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA)

Cellular Component

References

Additional References at PubMed
PMID:7477352   PMID:7477353   PMID:7499277   PMID:7693687   PMID:7744830   PMID:8163536   PMID:8176201   PMID:8626447   PMID:8629002   PMID:8657103   PMID:8790395   PMID:8798454  
PMID:9000133   PMID:9099676   PMID:9171347   PMID:9275205   PMID:10648173   PMID:10872802   PMID:10940905   PMID:11672534   PMID:11744621   PMID:11940607   PMID:12051764   PMID:12077122  
PMID:12522250   PMID:12885943   PMID:15123770   PMID:15173175   PMID:15489638   PMID:15845454   PMID:16456001   PMID:17086186   PMID:17353363   PMID:17365510   PMID:17621553   PMID:17681949  
PMID:17993265   PMID:18021750   PMID:18369315   PMID:18806259   PMID:18818202   PMID:19038866   PMID:19098920   PMID:19151749   PMID:19358895   PMID:19409513   PMID:19584058   PMID:19770268  
PMID:19797524   PMID:20624904   PMID:21055270   PMID:21083985   PMID:21189061   PMID:21354221   PMID:21642504   PMID:22041900   PMID:22078883   PMID:22267217   PMID:22451653   PMID:22496641  
PMID:23071339   PMID:23395392   PMID:23962979   PMID:24700868   PMID:25246527   PMID:25251945   PMID:25529862   PMID:25644261   PMID:26138128   PMID:27609517   PMID:28393919   PMID:29845271  
PMID:29901140   PMID:30942391  


Genomics

Candidate Gene Status
Syk is a candidate Gene for QTL Iddm20
Comparative Map Data
Syk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21712,604,615 - 12,678,437 (-)NCBI
Rnor_6.0 Ensembl1712,614,311 - 12,669,573 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01712,614,311 - 12,669,568 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01714,703,903 - 14,759,160 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41718,440,672 - 18,498,001 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11718,440,671 - 18,498,006 (-)NCBI
Celera1712,367,624 - 12,424,213 (-)NCBICelera
RH 3.4 Map17126.2RGD
Cytogenetic Map17p14NCBI
SYK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl990,801,787 - 90,898,549 (+)EnsemblGRCh38hg38GRCh38
GRCh38990,801,600 - 90,898,549 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37993,563,882 - 93,660,831 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36992,603,891 - 92,698,305 (+)NCBINCBI36hg18NCBI36
Build 34990,643,624 - 90,738,036NCBI
Celera963,998,674 - 64,095,487 (+)NCBI
Cytogenetic Map9q22.2NCBI
HuRef963,244,666 - 63,341,118 (+)NCBIHuRef
CHM1_1993,710,434 - 93,807,287 (+)NCBICHM1_1
Syk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391352,736,670 - 52,802,828 (+)NCBIGRCm39mm39
GRCm39 Ensembl1352,737,209 - 52,802,828 (+)Ensembl
GRCm381352,582,610 - 52,648,792 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1352,583,173 - 52,648,792 (+)EnsemblGRCm38mm10GRCm38
MGSCv371352,692,251 - 52,744,161 (+)NCBIGRCm37mm9NCBIm37
MGSCv361352,609,314 - 52,661,224 (+)NCBImm8
Celera1353,673,505 - 53,725,528 (+)NCBICelera
Cytogenetic Map13A5NCBI
cM Map1327.41NCBI
Syk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555151,328,630 - 1,380,581 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555151,328,793 - 1,400,206 (-)NCBIChiLan1.0ChiLan1.0
SYK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1989,959,599 - 90,056,101 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl989,959,599 - 90,056,101 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0961,859,767 - 61,956,619 (+)NCBIMhudiblu_PPA_v0panPan3
SYK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1195,903,501 - 95,955,577 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl195,903,566 - 95,955,583 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha196,356,719 - 96,440,184 (-)NCBI
ROS_Cfam_1.0196,507,029 - 96,590,534 (-)NCBI
UMICH_Zoey_3.1196,134,620 - 96,217,990 (-)NCBI
UNSW_CanFamBas_1.0195,855,025 - 95,938,496 (-)NCBI
UU_Cfam_GSD_1.0196,615,264 - 96,698,710 (-)NCBI
Syk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494412,408,886 - 12,455,229 (+)NCBI
SpeTri2.0NW_0049367801,553,605 - 1,601,036 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl142,056,712 - 2,161,172 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1142,103,706 - 2,160,886 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2142,866,432 - 2,869,706 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYK
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112101,254,085 - 101,374,724 (+)NCBI
ChlSab1.1 Ensembl12101,260,061 - 101,349,856 (+)Ensembl
Syk
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248681,654,079 - 1,738,648 (-)NCBI

Position Markers
Mx1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21712,609,871 - 12,610,041 (+)MAPPER
Rnor_6.01712,619,565 - 12,619,734NCBIRnor6.0
Rnor_5.01714,709,157 - 14,709,326UniSTSRnor5.0
RGSC_v3.41718,445,925 - 18,446,094UniSTSRGSC3.4
Celera1712,372,877 - 12,373,046UniSTS
Cytogenetic Map17p14UniSTS
RH94716  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21712,649,496 - 12,649,634 (+)MAPPER
Rnor_6.01712,657,678 - 12,657,815NCBIRnor6.0
Rnor_5.01714,747,270 - 14,747,407UniSTSRnor5.0
RGSC_v3.41718,485,426 - 18,485,563UniSTSRGSC3.4
Celera1712,412,355 - 12,412,492UniSTS
RH 3.4 Map17126.2UniSTS
Cytogenetic Map17p14UniSTS
RH137235  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21712,604,688 - 12,604,888 (+)MAPPER
Rnor_6.01712,614,381 - 12,614,580NCBIRnor6.0
Rnor_5.01714,703,973 - 14,704,172UniSTSRnor5.0
RGSC_v3.41718,440,742 - 18,440,941UniSTSRGSC3.4
Celera1712,367,694 - 12,367,893UniSTS
RH 3.4 Map17128.4UniSTS
Cytogenetic Map17p14UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17124787908Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17132230361Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17133303755Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17138243814Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17163676140Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17173413148Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17173413148Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1751977023422380Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1751977036283402Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17333697224030841Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17333697224030841Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17333697237790462Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17333697263676140Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17333697273413148Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17333697273413148Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17333697273413148Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17341403928073589Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17471606727691136Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17471606727691136Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17519104750191047Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17519104750191047Rat
1581553Pur14Proteinuria QTL 145.30.0001total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17842446716620067Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17973026321491085Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17973026321491085Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17973026321491085Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17973026321491085Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17982730454827304Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)171052970942542027Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:448
Count of miRNA genes:185
Interacting mature miRNAs:216
Transcripts:ENSRNOT00000016942, ENSRNOT00000041726
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, 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.


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 2 2 14 6 19 6 4 4 10
Low 1 41 43 35 35 8 11 74 31 34 1 8
Below cutoff 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016942   ⟹   ENSRNOP00000016942
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1712,614,311 - 12,669,573 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000041726   ⟹   ENSRNOP00000039482
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1712,614,311 - 12,669,573 (-)Ensembl
RefSeq Acc Id: NM_012758   ⟹   NP_036890
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21712,604,619 - 12,661,405 (-)NCBI
Rnor_6.01712,614,311 - 12,669,568 (-)NCBI
Rnor_5.01714,703,903 - 14,759,160 (-)NCBI
RGSC_v3.41718,440,672 - 18,498,001 (-)RGD
Celera1712,367,624 - 12,424,213 (-)RGD
Sequence:
RefSeq Acc Id: XM_039095375   ⟹   XP_038951303
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21712,604,615 - 12,678,437 (-)NCBI
RefSeq Acc Id: XM_039095376   ⟹   XP_038951304
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21712,604,615 - 12,661,467 (-)NCBI
RefSeq Acc Id: XM_039095377   ⟹   XP_038951305
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21712,604,615 - 12,678,437 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036890   ⟸   NM_012758
- Sequence:
RefSeq Acc Id: ENSRNOP00000016942   ⟸   ENSRNOT00000016942
RefSeq Acc Id: ENSRNOP00000039482   ⟸   ENSRNOT00000041726
RefSeq Acc Id: XP_038951305   ⟸   XM_039095377
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951303   ⟸   XM_039095375
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951304   ⟸   XM_039095376
- Peptide Label: isoform X1
Protein Domains
Protein kinase   SH2

Transcriptome

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

Promoters
RGD ID:13700336
Promoter ID:EPDNEW_R10859
Type:multiple initiation site
Name:Syk_1
Description:spleen associated 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_6.01712,669,618 - 12,669,678EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3796 AgrOrtholog
Ensembl Genes ENSRNOG00000012160 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016942 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000039482 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016942 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000041726 UniProtKB/TrEMBL
Gene3D-CATH 1.10.930.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.505.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase_SYK/ZAP-70_inter-SH2_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYK/ZAP-70_N_SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_non-rcpt_SYK/ZAP70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25155 UniProtKB/Swiss-Prot
NCBI Gene 25155 ENTREZGENE
Pfam Pkinase_Tyr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SYK RGD
PhenoGen Syk PhenoGen
PIRSF TyrPK_SYK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS SH2DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYRKINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TyrKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55550 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZH44_RAT UniProtKB/TrEMBL
  G3V7N4_RAT UniProtKB/TrEMBL
  KSYK_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-22 Syk  spleen associated tyrosine kinase  Syk  spleen tyrosine kinase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Syk  Spleen tyrosine kinase      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function binds to Fc epsilon RI in mast cells to activate mast cell effector functions 730070
gene_process controls tyrosine phosphorylation of Syk-associated Cbl following Fc epsilon RI receptor engagement 730201
gene_process plays a role in its own ubiquitination 730070
gene_process plays a role in its own ubiquitination 730201
gene_regulation Tyr342 but not Tyr346 is critical for regulating protein function 730070
gene_transcript alternative splicing produces two different transcripts and proteins in RBL-2H3 cells, both of which are functional tyrosine kinases 730000