Ripk1 (receptor interacting serine/threonine kinase 1) - Rat Genome Database

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Gene: Ripk1 (receptor interacting serine/threonine kinase 1) Rattus norvegicus
Analyze
Symbol: Ripk1
Name: receptor interacting serine/threonine kinase 1
RGD ID: 1310158
Description: Enables death receptor binding activity. Involved in positive regulation of necroptotic process. Located in membrane raft. Part of protein-containing complex. Human ortholog(s) of this gene implicated in immunodeficiency 57. Orthologous to human RIPK1 (receptor interacting serine/threonine kinase 1); PARTICIPATES IN ceramide signaling pathway; FasL mediated signaling pathway; Toll-like receptor signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2-acetamidofluorene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC306886; receptor (TNFRSF)-interacting serine-threonine kinase 1; receptor-interacting serine/threonine-protein kinase 1; RIP
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21730,839,639 - 30,871,824 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1730,839,650 - 30,871,824 (-)Ensembl
Rnor_6.01731,537,580 - 31,569,904 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1731,537,591 - 31,569,904 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01733,430,650 - 33,462,906 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41737,183,591 - 37,216,533 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11737,188,622 - 37,213,864 (-)NCBI
Celera1730,403,934 - 30,436,026 (-)NCBICelera
Cytogenetic Map17p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
3-chloropropane-1,2-diol  (EXP,ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-nitrophenol  (ISO)
5-fluorouracil  (ISO)
acrolein  (EXP)
acrylamide  (EXP,ISO)
adenosine  (ISO)
aflatoxin B1  (ISO)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
C.I. Natural Red 20  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
ceruletide  (EXP)
chenodeoxycholic acid  (ISO)
cisplatin  (ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
deoxycholic acid  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
Dihydrotanshinone I  (ISO)
dioxygen  (EXP,ISO)
ethanol  (ISO)
fenpyroximate  (ISO)
ferric oxide  (EXP)
fingolimod hydrochloride  (ISO)
furosemide  (EXP)
gallic acid  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
glyphosate  (ISO)
homocysteine  (ISO)
hydralazine  (ISO)
ivermectin  (ISO)
kaempferol  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
maneb  (ISO)
mangiferin  (ISO)
Melarsoprol  (ISO)
melatonin  (ISO)
metformin  (ISO)
methamidophos  (ISO)
methapyrilene  (EXP)
methoxyacetic acid  (EXP)
methyl methanesulfonate  (ISO)
Myrtucommulone A  (ISO)
nefazodone  (ISO)
nickel atom  (ISO)
o-anisidine  (ISO)
ochratoxin A  (ISO)
omethoate  (ISO)
osthole  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
parathion-methyl  (ISO)
PCB138  (ISO)
pentachlorophenol  (ISO)
phenylephrine  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
Pranoprofen  (ISO)
propacetamol  (ISO)
propylparaben  (ISO)
pterostilbene  (ISO)
quetiapine fumarate  (ISO)
resveratrol  (ISO)
rimonabant  (ISO)
rotenone  (ISO)
Shikonin  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium sulfite  (ISO)
Soman  (EXP)
sunitinib  (ISO)
temozolomide  (ISO)
tetrachloromethane  (ISO)
Triptolide  (ISO)
triptonide  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
WIN 55212-2  (ISO)
zinc oxide  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
amyloid fibril formation  (ISO,ISS)
apoptotic process  (ISO,ISS)
cell death  (ISO)
cellular protein catabolic process  (ISO)
cellular response to growth factor stimulus  (ISO)
cellular response to hydrogen peroxide  (ISO)
cellular response to tumor necrosis factor  (ISO)
extrinsic apoptotic signaling pathway  (ISO)
MAPK cascade  (IEA)
necroptotic process  (ISO,ISS)
necroptotic signaling pathway  (ISO,ISS)
negative regulation of apoptotic process  (ISO)
negative regulation of extrinsic apoptotic signaling pathway  (ISO)
negative regulation of extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
negative regulation of necroptotic process  (ISO)
peptidyl-serine autophosphorylation  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of cell death  (IMP)
positive regulation of extrinsic apoptotic signaling pathway  (ISO)
positive regulation of hydrogen peroxide-induced cell death  (ISO)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
positive regulation of inflammatory response  (ISO)
positive regulation of interleukin-6-mediated signaling pathway  (ISO)
positive regulation of interleukin-8 production  (ISO)
positive regulation of JNK cascade  (ISO)
positive regulation of macrophage differentiation  (ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of necroptotic process  (IMP,ISO)
positive regulation of necrotic cell death  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of phosphorylation  (ISO)
positive regulation of production of miRNAs involved in gene silencing by miRNA  (ISO)
positive regulation of programmed cell death  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of tumor necrosis factor production  (ISO)
positive regulation of tumor necrosis factor-mediated signaling pathway  (ISO)
programmed necrotic cell death  (ISO)
protein autophosphorylation  (ISO)
regulation of ATP:ADP antiporter activity  (ISO)
regulation of reactive oxygen species metabolic process  (ISO)
response to tumor necrosis factor  (ISO)
ripoptosome assembly  (ISO,ISS)
ripoptosome assembly involved in necroptotic process  (ISO)
T cell apoptotic process  (ISO,ISS)

Cellular Component

References

Additional References at PubMed
PMID:7538908   PMID:8612133   PMID:9044836   PMID:10521396   PMID:11101870   PMID:12761501   PMID:14743216   PMID:15001576   PMID:16127453   PMID:16507998   PMID:16611992   PMID:17047155  
PMID:17389591   PMID:18450452   PMID:19498109   PMID:20125124   PMID:20550618   PMID:21052097   PMID:21525013   PMID:21737330   PMID:21876153   PMID:21931591   PMID:22028622   PMID:22037414  
PMID:22089168   PMID:22173242   PMID:22265413   PMID:22265414   PMID:22274400   PMID:22817896   PMID:22891283   PMID:23473668   PMID:23788031   PMID:25416956   PMID:25907058   PMID:26020802  
PMID:26985994   PMID:27258785   PMID:27538408   PMID:27929749   PMID:28140659   PMID:28289909   PMID:28701375   PMID:28816233   PMID:28842570   PMID:29102662   PMID:29440439   PMID:30185824  
PMID:30439713   PMID:30867408   PMID:30988283   PMID:31511692   PMID:31519886   PMID:31519887   PMID:31827280   PMID:32308116   PMID:32471717  


Genomics

Comparative Map Data
Ripk1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21730,839,639 - 30,871,824 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1730,839,650 - 30,871,824 (-)Ensembl
Rnor_6.01731,537,580 - 31,569,904 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1731,537,591 - 31,569,904 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01733,430,650 - 33,462,906 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41737,183,591 - 37,216,533 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11737,188,622 - 37,213,864 (-)NCBI
Celera1730,403,934 - 30,436,026 (-)NCBICelera
Cytogenetic Map17p12NCBI
RIPK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl63,063,824 - 3,115,187 (+)EnsemblGRCh38hg38GRCh38
GRCh3863,063,967 - 3,115,187 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3763,064,201 - 3,115,421 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3663,022,057 - 3,060,420 (+)NCBINCBI36hg18NCBI36
Build 3463,022,056 - 3,060,420NCBI
Celera64,306,075 - 4,344,292 (+)NCBI
Cytogenetic Map6p25.2NCBI
HuRef62,949,918 - 2,985,831 (+)NCBIHuRef
CHM1_163,079,388 - 3,115,320 (+)NCBICHM1_1
Ripk1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391334,181,072 - 34,219,153 (+)NCBIGRCm39mm39
GRCm39 Ensembl1334,186,346 - 34,221,130 (+)Ensembl
GRCm381334,002,225 - 34,035,170 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1334,002,363 - 34,037,147 (+)EnsemblGRCm38mm10GRCm38
MGSCv371334,094,743 - 34,127,039 (+)NCBIGRCm37mm9NCBIm37
MGSCv361334,010,339 - 34,042,635 (+)NCBImm8
Celera1335,132,366 - 35,164,663 (+)NCBICelera
Cytogenetic Map13A3.3NCBI
cM Map1314.01NCBI
Ripk1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546510,128,931 - 10,168,399 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546510,127,907 - 10,167,895 (-)NCBIChiLan1.0ChiLan1.0
RIPK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.162,997,290 - 3,046,230 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl62,997,343 - 3,045,078 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v062,893,802 - 2,943,162 (+)NCBIMhudiblu_PPA_v0panPan3
RIPK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1353,367,796 - 3,407,631 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl353,263,226 - 3,405,883 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha353,389,823 - 3,415,320 (+)NCBI
ROS_Cfam_1.0353,438,752 - 3,464,273 (+)NCBI
ROS_Cfam_1.0 Ensembl353,423,918 - 3,463,415 (+)Ensembl
UMICH_Zoey_3.1353,314,211 - 3,339,692 (+)NCBI
UNSW_CanFamBas_1.0353,335,923 - 3,361,423 (+)NCBI
UU_Cfam_GSD_1.0354,668,563 - 4,694,064 (+)NCBI
Ripk1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494621,056,263 - 21,092,741 (-)NCBI
SpeTri2.0NW_0049365349,326,307 - 9,361,943 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RIPK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl71,841,236 - 1,880,699 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.171,841,143 - 1,880,705 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.271,905,685 - 1,945,193 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RIPK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11769,065,509 - 69,117,825 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1769,063,047 - 69,105,348 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660442,996,251 - 3,043,598 (+)NCBIVero_WHO_p1.0
Ripk1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475621,806,570 - 21,837,351 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH134680  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21730,839,781 - 30,839,980 (+)MAPPERmRatBN7.2
Rnor_6.01731,537,723 - 31,537,921NCBIRnor6.0
Rnor_5.01733,430,793 - 33,430,991UniSTSRnor5.0
RGSC_v3.41737,183,723 - 37,183,921UniSTSRGSC3.4
Celera1730,404,066 - 30,404,264UniSTS
Cytogenetic Map17p12UniSTS
RH141522  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21730,841,517 - 30,841,730 (+)MAPPERmRatBN7.2
Rnor_6.01731,539,459 - 31,539,671NCBIRnor6.0
Rnor_5.01733,432,529 - 33,432,741UniSTSRnor5.0
RGSC_v3.41737,185,459 - 37,185,671UniSTSRGSC3.4
Celera1730,405,802 - 30,406,014UniSTS
RH 3.4 Map17327.01UniSTS
Cytogenetic Map17p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17999128640540197Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171533061355836425Rat
1354640Scl32Serum cholesterol level QTL 325.4blood HDL cholesterol amount (VT:0000184)blood high density lipoprotein cholesterol level (CMO:0000052)171578159260781592Rat
1354659Scl68Serum cholesterol level QTL 683.9blood VLDL cholesterol amount (VT:0005144)blood very low density lipoprotein cholesterol level (CMO:0000648)171578159260781592Rat
7394837Memor18Memory QTL 18exploratory behavior trait (VT:0010471)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)171864018263640182Rat
1354628Stl13Serum triglyceride level QTL 133.8blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)172129303960781592Rat
70157Niddm32Non-insulin dependent diabetes mellitus QTL 324.34blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)172245492450909196Rat
61394Bp8Blood pressure QTL 82.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172308056759555013Rat
7488966Bp370Blood pressure QTL 3700.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318457246843Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172365318468653184Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172365318468653184Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172365318468653184Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172365318468653184Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318468653184Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172365318470974005Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172459934069599340Rat
4889891Eae32Experimental allergic encephalomyelitis QTL 324.80.0002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)172702794936146731Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172702794956836890Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172702794960463643Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)172738994653481766Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:413
Count of miRNA genes:234
Interacting mature miRNAs:292
Transcripts:ENSRNOT00000023962
Prediction methods:Microtar, Miranda, Pita
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 4 44 28 19 28 39 35 34 11
Low 39 13 13 13 8 11 35 7 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107350 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600528 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473977 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000288 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000023962   ⟹   ENSRNOP00000023962
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1730,839,650 - 30,871,824 (-)Ensembl
Rnor_6.0 Ensembl1731,537,591 - 31,569,904 (-)Ensembl
RefSeq Acc Id: NM_001107350   ⟹   NP_001100820
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,650 - 30,871,824 (-)NCBI
Rnor_6.01731,537,591 - 31,569,904 (-)NCBI
Rnor_5.01733,430,650 - 33,462,906 (-)NCBI
RGSC_v3.41737,183,591 - 37,216,533 (-)RGD
Celera1730,403,934 - 30,436,026 (-)RGD
Sequence:
RefSeq Acc Id: XM_017600523   ⟹   XP_017456012
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,387 (-)NCBI
Rnor_6.01731,537,580 - 31,569,431 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600524   ⟹   XP_017456013
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,391 (-)NCBI
Rnor_6.01731,537,580 - 31,569,431 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600526   ⟹   XP_017456015
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,661 (-)NCBI
Rnor_6.01731,537,580 - 31,569,690 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600527   ⟹   XP_017456016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,391 (-)NCBI
Rnor_6.01731,537,580 - 31,569,431 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600528   ⟹   XP_017456017
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,660 (-)NCBI
Rnor_6.01731,537,580 - 31,569,675 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600529   ⟹   XP_017456018
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,661 (-)NCBI
Rnor_6.01731,537,580 - 31,569,690 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039095691   ⟹   XP_038951619
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,387 (-)NCBI
RefSeq Acc Id: XM_039095692   ⟹   XP_038951620
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,379 (-)NCBI
RefSeq Acc Id: XM_039095693   ⟹   XP_038951621
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,661 (-)NCBI
RefSeq Acc Id: XM_039095694   ⟹   XP_038951622
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,387 (-)NCBI
RefSeq Acc Id: XM_039095695   ⟹   XP_038951623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,871,361 (-)NCBI
RefSeq Acc Id: XM_039095696   ⟹   XP_038951624
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21730,839,639 - 30,861,319 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100820   ⟸   NM_001107350
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456018   ⟸   XM_017600529
- Peptide Label: isoform X1
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456015   ⟸   XM_017600526
- Peptide Label: isoform X1
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456017   ⟸   XM_017600528
- Peptide Label: isoform X1
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456016   ⟸   XM_017600527
- Peptide Label: isoform X1
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456013   ⟸   XM_017600524
- Peptide Label: isoform X1
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456012   ⟸   XM_017600523
- Peptide Label: isoform X1
- UniProtKB: D3ZYL0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023962   ⟸   ENSRNOT00000023962
RefSeq Acc Id: XP_038951621   ⟸   XM_039095693
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951622   ⟸   XM_039095694
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951619   ⟸   XM_039095691
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951620   ⟸   XM_039095692
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951623   ⟸   XM_039095695
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951624   ⟸   XM_039095696
- Peptide Label: isoform X2
Protein Domains
Death   Protein kinase

Transcriptome

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

Promoters
RGD ID:13700414
Promoter ID:EPDNEW_R10938
Type:multiple initiation site
Name:Ripk1_1
Description:receptor interacting serine/threonine kinase 1
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_6.01731,569,895 - 31,569,955EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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
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 (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
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-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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
BN/SsN (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
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 (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
BXH2/CubMcwi (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
BXH3/CubMcwi (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
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)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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
F344/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
F344/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
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
F344/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
FHH/EurMcwi (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
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
FXLE16/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
FXLE18/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
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/FarMcwi (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
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/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
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 (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
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
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)
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
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)
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
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:1310158 AgrOrtholog
Ensembl Genes ENSRNOG00000017787 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000023962 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023962 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.533.10 UniProtKB/TrEMBL
InterPro Death UniProtKB/TrEMBL
  DEATH-like UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  RHIM_dom UniProtKB/TrEMBL
  RIP1_Death UniProtKB/TrEMBL
  Ser-Thr/Tyr-Pkinase UniProtKB/TrEMBL
  Ser/Thr_prot_kinase_AS UniProtKB/TrEMBL
KEGG Report rno:306886 UniProtKB/TrEMBL
NCBI Gene 306886 ENTREZGENE
Pfam Death UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/TrEMBL
  RHIM UniProtKB/TrEMBL
PhenoGen Ripk1 PhenoGen
PRINTS TYRKINASE UniProtKB/TrEMBL
PROSITE DEATH_DOMAIN UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
SMART DEATH UniProtKB/TrEMBL
  S_TKc UniProtKB/TrEMBL
Superfamily-SCOP DEATH_like UniProtKB/TrEMBL
  Kinase_like UniProtKB/TrEMBL
UniProt D3ZYL0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Ripk1  receptor interacting serine/threonine kinase 1  Ripk1  receptor (TNFRSF)-interacting serine-threonine kinase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ripk1  receptor (TNFRSF)-interacting serine-threonine kinase 1   Ripk1_predicted  receptor (TNFRSF)-interacting serine-threonine kinase 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ripk1_predicted  receptor (TNFRSF)-interacting serine-threonine kinase 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED