Kit (KIT proto-oncogene receptor tyrosine kinase) - Rat Genome Database

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Gene: Kit (KIT proto-oncogene receptor tyrosine kinase) Rattus norvegicus
Analyze
Symbol: Kit
Name: KIT proto-oncogene receptor tyrosine kinase
RGD ID: 620568
Description: Enables protein tyrosine kinase activity. Involved in several processes, including gamete generation; positive regulation of gastro-intestinal system smooth muscle contraction; and protein phosphorylation. Located in acrosomal vesicle; cytoplasmic side of plasma membrane; and external side of plasma membrane. Used to study aplastic anemia and male infertility. Biomarker of acute pancreatitis and gastroschisis. Human ortholog(s) of this gene implicated in several diseases, including acute myeloid leukemia; gastrointestinal stromal tumor; germ cell cancer (multiple); piebaldism; and renal cell carcinoma. Orthologous to human KIT (KIT proto-oncogene, receptor tyrosine kinase); PARTICIPATES IN acute myeloid leukemia pathway; cytokine mediated signaling pathway; endocytosis pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,5-hexanedione; 2-acetamidofluorene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: c-kit receptor tyrosine kinase; Kit oncogene; mast/stem cell growth factor receptor; mast/stem cell growth factor receptor Kit; protein kinase; v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: KitWs  
Genetic Models: BN-KitWs
Is Marker For: Strains:   F344-TyrCKitH/Kyo   F344-AsipATyrCKitH/Kyo  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21432,547,459 - 32,624,694 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1435,072,108 - 35,149,610 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01435,072,131 - 35,149,638 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01434,901,860 - 34,979,384 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41434,906,043 - 34,984,819 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11434,906,042 - 34,984,819 (-)NCBI
Celera1431,837,543 - 31,913,518 (-)NCBICelera
Cytogenetic Map14p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Liver Failure  (ISO)
acute myeloid leukemia  (ISO)
acute pancreatitis  (IEP)
acute promyelocytic leukemia  (ISO)
aplastic anemia  (IMP)
Breast Neoplasms  (ISO)
chronic myeloid leukemia  (ISO)
cutaneous mastocytosis  (ISO)
disease of cellular proliferation  (ISO)
dysgerminoma  (ISO)
endometrial stromal sarcoma  (ISO)
Experimental Autoimmune Encephalomyelitis  (ISO)
gastric adenocarcinoma  (ISO)
Gastric Reperfusion Injury  (IEP)
Gastrointestinal Neoplasms  (ISO)
gastrointestinal stromal tumor  (ISO)
gastroschisis  (IEP)
Germ Cell and Embryonal Neoplasms  (ISO)
granulosa cell tumor  (ISO)
head and neck squamous cell carcinoma  (ISO)
hematologic cancer  (ISO)
Hematologic Neoplasms  (ISO)
hereditary breast ovarian cancer syndrome  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
Hirschsprung's disease  (ISO)
interstitial lung disease  (ISO)
invasive ductal carcinoma  (ISO)
Latent Tuberculosis  (ISO)
leiomyosarcoma  (ISO)
lung disease  (ISO)
lung non-small cell carcinoma  (ISO)
lung small cell carcinoma  (ISO)
lung squamous cell carcinoma  (ISO)
macrocytic anemia  (ISS)
male infertility  (IAGP)
malignant mesothelioma  (ISO)
Mammary Neoplasms, Experimental  (IAGP)
mast-cell leukemia  (ISO)
mastocytosis  (ISO)
melanoma  (ISO)
myeloproliferative neoplasm  (ISO)
Neoplasm Recurrence, Local  (ISO)
nephroblastoma  (ISO)
neurofibroma  (ISO)
Ovarian Neoplasms  (ISO)
oxyphilic adenoma  (ISO)
Phyllodes Tumor  (ISO)
piebaldism  (ISO)
primary immunodeficiency disease  (ISO)
Primitive Peripheral Neuroectodermal Tumors  (ISO)
renal cell carcinoma  (ISO)
seminoma  (ISO)
skin melanoma  (ISO)
systemic mastocytosis  (ISO)
testicular cancer  (ISO)
testicular germ cell cancer  (ISO,ISS)
Testicular Germ Cell Tumor  (ISO)
thymoma  (ISO)
Transplant Rejection  (IEP)
urinary bladder cancer  (ISO)
uterine carcinosarcoma  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-artemisinic acid  (ISO)
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(20S)-ginsenoside Rg3  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2-(2-Chlorophenyl-4'-chlorophenyl)-1,1-dichloroethene  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,5-hexanedione  (EXP)
2-acetamidofluorene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
acetic acid  (ISO)
acrolein  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (EXP,ISO)
allethrin  (EXP)
alpha-hexachlorocyclohexane  (EXP)
alvocidib  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atropine  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP)
bleomycin A2  (ISO)
bromochloroacetic acid  (ISO)
busulfan  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clothianidin  (ISO)
compound 48/80  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
crizotinib  (ISO)
curcumin  (EXP)
D-glucose  (ISO)
daunorubicin  (EXP)
DDD  (ISO)
DDE  (ISO)
DDT  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dextromethorphan  (ISO)
Diacetoxyscirpenol  (ISO)
diallyl disulfide  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP)
dieldrin  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
endrin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
etoposide  (ISO)
fenvalerate  (EXP)
formaldehyde  (ISO)
gamma-hexachlorocyclohexane  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
glucose  (ISO)
glyphosate  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
LY294002  (ISO)
maneb  (EXP)
masitinib  (ISO)
methylmercury chloride  (ISO)
microcystin-LR  (EXP)
midostaurin  (ISO)
morin  (EXP)
N,O-dimethyltyramine  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
nickel atom  (EXP)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nitrofen  (EXP)
orantinib  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
parathion  (ISO)
PD 0325901  (ISO)
perfluorooctanoic acid  (ISO)
phosgene  (ISO)
ponatinib  (ISO)
potassium chromate  (ISO)
potassium dichromate  (EXP)
potassium iodide  (EXP)
rebaudioside A  (ISO)
resveratrol  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
simazine  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sorafenib  (ISO)
steviol  (ISO)
stevioside  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
tanespimycin  (EXP,ISO)
tetraphene  (ISO)
thapsigargin  (ISO)
titanium dioxide  (EXP,ISO)
trichostatin A  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
uranium atom  (EXP)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vitamin D  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton reorganization  (ISO)
B cell differentiation  (IBA)
cell chemotaxis  (ISO)
cellular response to thyroid hormone stimulus  (ISO)
cytokine-mediated signaling pathway  (ISO)
detection of mechanical stimulus involved in sensory perception of sound  (ISO)
developmental pigmentation  (ISO)
digestive tract development  (ISO)
ectopic germ cell programmed cell death  (ISO)
embryonic hemopoiesis  (ISO)
epithelial cell proliferation  (IMP)
erythrocyte differentiation  (ISO)
erythropoietin-mediated signaling pathway  (ISO)
Fc receptor signaling pathway  (ISO)
germ cell migration  (IMP)
glycosphingolipid metabolic process  (ISO)
hematopoietic progenitor cell differentiation  (IBA)
hematopoietic stem cell migration  (ISO)
hemopoiesis  (ISO)
immature B cell differentiation  (ISO)
inflammatory response  (ISO)
intracellular signal transduction  (ISO)
Kit signaling pathway  (IBA,ISO)
lamellipodium assembly  (ISO)
lymphoid progenitor cell differentiation  (ISO)
male gonad development  (ISO)
mast cell chemotaxis  (ISO)
mast cell degranulation  (ISO)
mast cell differentiation  (ISO)
megakaryocyte development  (ISO)
melanocyte adhesion  (ISO)
melanocyte differentiation  (ISO)
melanocyte migration  (ISO)
myeloid leukocyte differentiation  (ISO)
myeloid progenitor cell differentiation  (ISO)
negative regulation of programmed cell death  (ISO)
ovarian follicle development  (ISO)
peptidyl-tyrosine phosphorylation  (IDA,ISO)
pigmentation  (ISO)
positive regulation of cell migration  (IBA,IMP)
positive regulation of cell population proliferation  (IMP,ISO)
positive regulation of colon smooth muscle contraction  (IMP)
positive regulation of dendritic cell cytokine production  (ISO)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of kinase activity  (IBA)
positive regulation of long-term neuronal synaptic plasticity  (IMP)
positive regulation of MAP kinase activity  (IBA,ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of mast cell cytokine production  (ISO)
positive regulation of Notch signaling pathway  (IMP)
positive regulation of pseudopodium assembly  (IMP)
positive regulation of pyloric antrum smooth muscle contraction  (IMP)
positive regulation of receptor signaling pathway via JAK-STAT  (IBA,ISO)
positive regulation of small intestine smooth muscle contraction  (IMP)
positive regulation of tyrosine phosphorylation of STAT protein  (ISO)
positive regulation of vascular associated smooth muscle cell differentiation  (ISO)
protein autophosphorylation  (IDA,ISO)
protein phosphorylation  (ISO)
regulation of bile acid metabolic process  (IMP)
regulation of cell shape  (ISO)
response to cadmium ion  (IEP)
response to radiation  (IEP,ISO)
somatic stem cell division  (IMP)
somatic stem cell population maintenance  (IMP)
spermatid development  (ISO)
spermatogenesis  (IMP,ISO)
stem cell differentiation  (ISO)
T cell differentiation  (ISO)
tongue development  (IEP)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA)
visual learning  (IMP)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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Additional References at PubMed
PMID:1721869   PMID:7621074   PMID:9216738   PMID:9324354   PMID:10620616   PMID:10872802   PMID:10943842   PMID:10982396   PMID:11805142   PMID:12135759   PMID:12163398   PMID:12641831  
PMID:12714518   PMID:12714519   PMID:12833143   PMID:12879016   PMID:12900455   PMID:14612394   PMID:14625290   PMID:14660547   PMID:14990792   PMID:15067126   PMID:15322542   PMID:15731517  
PMID:15768389   PMID:15909309   PMID:15947484   PMID:16127161   PMID:16287714   PMID:16455951   PMID:17662946   PMID:17848411   PMID:18087173   PMID:18258601   PMID:18258857   PMID:18308723  
PMID:18448842   PMID:18454155   PMID:18454205   PMID:18538998   PMID:18544282   PMID:18958875   PMID:18971422   PMID:19088079   PMID:19255573   PMID:19375645   PMID:19591228   PMID:19634669  
PMID:19934022   PMID:20100931   PMID:20536544   PMID:20847314   PMID:21135090   PMID:21179204   PMID:21455098   PMID:21559359   PMID:21634019   PMID:21640708   PMID:21708977   PMID:22366471  
PMID:22526758   PMID:22637532   PMID:22871113   PMID:22931954   PMID:23090426   PMID:23284756   PMID:23843227   PMID:24228598   PMID:24825426   PMID:25304966   PMID:25693193   PMID:26240433  
PMID:26393440   PMID:27707610   PMID:28109954   PMID:28801138   PMID:29348441   PMID:29444190   PMID:30283057  


Genomics

Comparative Map Data
Kit
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21432,547,459 - 32,624,694 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1435,072,108 - 35,149,610 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01435,072,131 - 35,149,638 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01434,901,860 - 34,979,384 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41434,906,043 - 34,984,819 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11434,906,042 - 34,984,819 (-)NCBI
Celera1431,837,543 - 31,913,518 (-)NCBICelera
Cytogenetic Map14p11NCBI
KIT
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl454,657,918 - 54,740,715 (+)EnsemblGRCh38hg38GRCh38
GRCh38454,657,957 - 54,740,715 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37455,524,124 - 55,606,881 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36455,218,852 - 55,301,638 (+)NCBINCBI36hg18NCBI36
Build 34455,365,088 - 55,447,783NCBI
Celera453,026,240 - 53,109,027 (+)NCBI
Cytogenetic Map4q12NCBI
HuRef451,471,979 - 51,554,769 (+)NCBIHuRef
CHM1_1455,559,642 - 55,642,426 (+)NCBICHM1_1
Kit
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39575,735,647 - 75,817,382 (+)NCBIGRCm39mm39
GRCm39 Ensembl575,735,576 - 75,817,382 (+)Ensembl
GRCm38575,574,987 - 75,656,722 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl575,574,916 - 75,656,722 (+)EnsemblGRCm38mm10GRCm38
MGSCv37575,971,012 - 76,052,747 (+)NCBIGRCm37mm9NCBIm37
MGSCv36575,856,721 - 75,938,419 (+)NCBImm8
Celera572,859,483 - 72,942,690 (+)NCBICelera
Cytogenetic Map5C3.3NCBI
cM Map539.55NCBI
Kit
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544716,148,605 - 16,226,734 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544716,149,014 - 16,226,151 (-)NCBIChiLan1.0ChiLan1.0
KIT
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1475,761,946 - 75,844,473 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl475,761,946 - 75,844,473 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0469,199,543 - 69,282,323 (-)NCBIMhudiblu_PPA_v0panPan3
KIT
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11347,108,442 - 47,190,935 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1347,108,504 - 47,190,029 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1347,065,096 - 47,146,648 (+)NCBI
ROS_Cfam_1.01347,717,855 - 47,799,689 (+)NCBI
UMICH_Zoey_3.11347,394,247 - 47,475,763 (+)NCBI
UNSW_CanFamBas_1.01346,922,748 - 47,004,082 (+)NCBI
UU_Cfam_GSD_1.01347,870,472 - 47,952,050 (+)NCBI
Kit
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528529,059,916 - 29,135,385 (-)NCBI
SpeTri2.0NW_00493648217,162,854 - 17,238,319 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KIT
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl841,402,043 - 41,493,735 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1841,402,334 - 41,492,306 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2843,550,231 - 43,601,377 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap8p12NCBI
KIT
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1713,808,104 - 13,891,003 (-)NCBI
ChlSab1.1 Ensembl713,808,037 - 13,890,976 (-)Ensembl
Vero_WHO_p1.0NW_02366606614,587,172 - 14,670,161 (-)NCBI
Kit
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476114,733,912 - 14,831,428 (-)NCBI

Position Markers
D14Rat13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21432,583,238 - 32,583,345 (+)MAPPERmRatBN7.2
Rnor_6.01435,107,913 - 35,108,019NCBIRnor6.0
Rnor_5.01434,937,640 - 34,937,746UniSTSRnor5.0
Celera1431,871,910 - 31,872,016UniSTS
RH 3.4 Map14434.28UniSTS
RH 3.4 Map14434.28RGD
RH 2.0 Map14396.3RGD
SHRSP x BN Map1423.82RGD
Cytogenetic Map14p11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14826709053267090Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14826709053267090Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14908897839057237Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)141759376142336881Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141762256142337007Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141863134542337007Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
2324617Coatc2Coat color QTL 20.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)143076702539153750Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat


Related Rat Strains
The following Strains have been annotated to Kit


Genetic Models
This gene Kit is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:127
Count of miRNA genes:95
Interacting mature miRNAs:110
Transcripts:ENSRNOT00000003050
Prediction methods:Miranda, 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 3 16 12 10 9 10 74 29 34 11
Low 27 45 31 10 31 8 11 6 7 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF228307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF228308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF228309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF228310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF228311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH010214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH010215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CS117952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D12524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247832 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU247833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000003050   ⟹   ENSRNOP00000003050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1435,072,133 - 35,149,608 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090654   ⟹   ENSRNOP00000068756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1435,072,108 - 35,149,610 (-)Ensembl
RefSeq Acc Id: NM_022264   ⟹   NP_071600
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21432,548,877 - 32,624,652 (-)NCBI
Rnor_6.01435,073,551 - 35,149,608 (-)NCBI
Rnor_5.01434,901,860 - 34,979,384 (-)NCBI
RGSC_v3.41434,906,043 - 34,984,819 (-)RGD
Celera1431,837,543 - 31,913,518 (-)RGD
Sequence:
RefSeq Acc Id: XM_006250909   ⟹   XP_006250971
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21432,547,459 - 32,624,694 (-)NCBI
Rnor_6.01435,072,131 - 35,149,638 (-)NCBI
Rnor_5.01434,901,860 - 34,979,384 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_071600 (Get FASTA)   NCBI Sequence Viewer  
  XP_006250971 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF69130 (Get FASTA)   NCBI Sequence Viewer  
  AAF69131 (Get FASTA)   NCBI Sequence Viewer  
  AAF69132 (Get FASTA)   NCBI Sequence Viewer  
  AAF69133 (Get FASTA)   NCBI Sequence Viewer  
  AAF69134 (Get FASTA)   NCBI Sequence Viewer  
  AAG48585 (Get FASTA)   NCBI Sequence Viewer  
  AAG48586 (Get FASTA)   NCBI Sequence Viewer  
  AAG48587 (Get FASTA)   NCBI Sequence Viewer  
  ABX45067 (Get FASTA)   NCBI Sequence Viewer  
  ABX45068 (Get FASTA)   NCBI Sequence Viewer  
  ABX45069 (Get FASTA)   NCBI Sequence Viewer  
  ABX45070 (Get FASTA)   NCBI Sequence Viewer  
  ABX45071 (Get FASTA)   NCBI Sequence Viewer  
  ABX45072 (Get FASTA)   NCBI Sequence Viewer  
  ABX45073 (Get FASTA)   NCBI Sequence Viewer  
  ABX45074 (Get FASTA)   NCBI Sequence Viewer  
  ABX45075 (Get FASTA)   NCBI Sequence Viewer  
  ABX45076 (Get FASTA)   NCBI Sequence Viewer  
  ABX45077 (Get FASTA)   NCBI Sequence Viewer  
  ABX45078 (Get FASTA)   NCBI Sequence Viewer  
  ABX45079 (Get FASTA)   NCBI Sequence Viewer  
  ABX45080 (Get FASTA)   NCBI Sequence Viewer  
  ABX45081 (Get FASTA)   NCBI Sequence Viewer  
  ABX45082 (Get FASTA)   NCBI Sequence Viewer  
  ABX45083 (Get FASTA)   NCBI Sequence Viewer  
  BAA02094 (Get FASTA)   NCBI Sequence Viewer  
  CAJ15132 (Get FASTA)   NCBI Sequence Viewer  
  EDL89921 (Get FASTA)   NCBI Sequence Viewer  
  EDL89922 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_071600   ⟸   NM_022264
- Peptide Label: precursor
- UniProtKB: Q63116 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006250971   ⟸   XM_006250909
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JTL4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068756   ⟸   ENSRNOT00000090654
RefSeq Acc Id: ENSRNOP00000003050   ⟸   ENSRNOT00000003050
Protein Domains
Ig-like   Protein kinase

Transcriptome

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

Promoters
RGD ID:13699292
Promoter ID:EPDNEW_R9805
Type:multiple initiation site
Name:Kit_1
Description:KIT proto-oncogene receptor 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_6.01435,149,622 - 35,149,682EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
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/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
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 (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
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:620568 AgrOrtholog
Ensembl Genes ENSRNOG00000002227 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003050 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068756 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003050 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090654 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Immunoglobulin UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  SCGF_receptor UniProtKB/TrEMBL
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/TrEMBL
  Tyr_kinase_rcpt_3_CS UniProtKB/TrEMBL
KEGG Report rno:64030 UniProtKB/TrEMBL
NCBI Gene 64030 ENTREZGENE
Pfam PF00047 UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/TrEMBL
PharmGKB KIT RGD
PhenoGen Kit PhenoGen
PIRSF SCGF_recepter UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/TrEMBL
  RECEPTOR_TYR_KIN_III UniProtKB/TrEMBL
SMART IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
  TyrKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2JTL4 ENTREZGENE, UniProtKB/TrEMBL
  B7SCJ0_RAT UniProtKB/TrEMBL
  B7SCJ1_RAT UniProtKB/TrEMBL
  B7SCJ2_RAT UniProtKB/TrEMBL
  Q63116 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-21 Kit  KIT proto-oncogene receptor tyrosine kinase  Kit  v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Kit  v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog    c-kit receptor tyrosine kinase  Name updated 1299863 APPROVED
2002-08-07 Kit  c-kit receptor tyrosine kinase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease deletion of Val-Lys-Gly-Asn sequence is associated with anemia and deficiency in mast cells and melanocytes 633170