Irak1 (interleukin-1 receptor-associated kinase 1) - Rat Genome Database
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Gene: Irak1 (interleukin-1 receptor-associated kinase 1) Rattus norvegicus
Analyze
Symbol: Irak1
Name: interleukin-1 receptor-associated kinase 1
RGD ID: 1563841
Description: Exhibits heat shock protein binding activity and protein kinase activity. Involved in several processes, including JNK cascade; cellular response to lipopolysaccharide; and positive regulation of smooth muscle cell proliferation. Localizes to membrane. Biomarker of brain ischemia and cognitive disorder. Human ortholog(s) of this gene implicated in ankylosing spondylitis; diffuse scleroderma; psoriatic arthritis; and squamous cell carcinoma. Orthologous to human IRAK1 (interleukin 1 receptor associated kinase 1); PARTICIPATES IN interleukin-1 signaling pathway; Toll-like receptor signaling pathway; apoptotic cell death pathway; INTERACTS WITH 17alpha-ethynylestradiol; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC363520; RGD1563841; similar to interleukin-1 receptor associated kinase 1 splice form 3
Orthologs:
Homo sapiens (human) : IRAK1 (interleukin 1 receptor associated kinase 1)  HGNC  Alliance
Mus musculus (house mouse) : Irak1 (interleukin-1 receptor-associated kinase 1)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Irak1 (interleukin 1 receptor associated kinase 1)
Pan paniscus (bonobo/pygmy chimpanzee) : IRAK1 (interleukin 1 receptor associated kinase 1)
Canis lupus familiaris (dog) : IRAK1 (interleukin 1 receptor associated kinase 1)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Irak1 (interleukin 1 receptor associated kinase 1)
Sus scrofa (pig) : IRAK1 (interleukin 1 receptor associated kinase 1)
Chlorocebus sabaeus (African green monkey) : IRAK1 (interleukin 1 receptor associated kinase 1)
Heterocephalus glaber (naked mole-rat) : Irak1 (interleukin 1 receptor associated kinase 1)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0X156,716,469 - 156,726,367 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,716,604 - 156,725,977 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01152,464,303 - 152,474,397 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X159,960,184 - 159,969,180 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1136,116,523 - 136,125,519 (+)NCBICelera
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
5-fluorouracil  (ISO)
acrylamide  (EXP)
arsenous acid  (ISO)
atorvastatin calcium  (ISO)
atrazine  (ISO)
auranofin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
cadmium dichloride  (ISO)
cadmium selenide  (ISO)
caffeine  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cobalt dichloride  (EXP,ISO)
copper(II) sulfate  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
deoxynivalenol  (ISO)
dextran  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (ISO)
doxorubicin  (ISO)
enalapril  (ISO)
enzyme inhibitor  (ISO)
erlotinib hydrochloride  (ISO)
ethanol  (ISO)
fenamidone  (ISO)
finasteride  (EXP)
flavonoids  (ISO)
flutamide  (EXP)
folic acid  (ISO)
Fusaric acid  (ISO)
genistein  (ISO)
ginsenoside Re  (ISO)
glafenine  (EXP)
glycyrrhetinate  (ISO)
glycyrrhetinic acid  (ISO)
helenalin  (ISO)
hydrogen peroxide  (ISO)
kaempferol  (ISO)
leflunomide  (EXP)
lipoarabinomannan  (ISO)
lipopolysaccharide  (EXP,ISO)
methotrexate  (ISO)
Monobutylphthalate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
nefazodone  (EXP)
nicotine  (ISO)
nimesulide  (EXP)
o-anisidine  (ISO)
obeticholic acid  (ISO)
okadaic acid  (ISO)
paracetamol  (ISO)
pentachlorophenol  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
telmisartan  (ISO)
tetrachloromethane  (ISO)
titanium atom  (EXP)
titanium dioxide  (ISO)
Tylophorine  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vorinostat  (ISO)
xanthones  (ISO)
zinc oxide  (ISO)
zinc protoporphyrin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA)
cytosol  (IEA,ISO)
lipid droplet  (ISO)
membrane  (IDA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA)
plasma membrane  (IBA)
protein-containing complex  (ISO)

References

References - curated
1. Belarbi K, etal., J Neuroinflammation. 2012 Jan 25;9:23. doi: 10.1186/1742-2094-9-23.
2. Chandrasekar B, etal., J Biol Chem. 2005 Jul 15;280(28):26263-77. Epub 2005 May 11.
3. Chao W, etal., J Biol Chem. 2005 Jun 10;280(23):21997-2005. Epub 2005 Mar 26.
4. Chatzikyriakidou A, etal., Scand J Immunol. 2010 May;71(5):382-5. doi: 10.1111/j.1365-3083.2010.02381.x.
5. Dieude P, etal., Arthritis Rheum. 2011 Dec;63(12):3979-87. doi: 10.1002/art.30640.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Halkein J, etal., J Clin Invest. 2013 May 1;123(5):2143-54. doi: 10.1172/JCI64365. Epub 2013 Apr 24.
8. Howard M, etal., Shock. 2013 Feb;39(2):189-96. doi: 10.1097/SHK.0b013e31827e8ea3.
9. Hung PS, etal., PLoS One. 2013 Nov 26;8(11):e79926. doi: 10.1371/journal.pone.0079926.
10. Kumar H, etal., Int Rev Immunol. 2011 Feb;30(1):16-34.
11. Li Y, etal., Shock. 2009 Jan;31(1):55-63. doi: 10.1097/SHK.0b013e3181778ab2.
12. Pipeline to import KEGG annotations from KEGG into RGD
13. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
14. RGD automated data pipeline
15. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. RGD automated import pipeline for gene-chemical interactions
17. Thomas JA, etal., Am J Physiol Heart Circ Physiol. 2003 Aug;285(2):H597-606.
18. Verstrepen L, etal., Cell Mol Life Sci. 2008 Oct;65(19):2964-78.
19. Weber A, etal., Sci Signal. 2010 Jan 19;3(105):cm1. doi: 10.1126/scisignal.3105cm1.
20. Xia P, etal., Immunol Lett. 2012 Dec 17;148(2):151-62. doi: 10.1016/j.imlet.2012.09.004. Epub 2012 Sep 24.
21. Yang YF, etal., Neuroscience. 2011 Nov 24;196:25-34. doi: 10.1016/j.neuroscience.2011.08.059. Epub 2011 Sep 10.
Additional References at PubMed
PMID:10383454   PMID:10549626   PMID:10854325   PMID:11397809   PMID:11960013   PMID:12054681   PMID:12477932   PMID:12855817   PMID:15292196   PMID:15946255   PMID:16831874   PMID:17379480  
PMID:17668873   PMID:19717152   PMID:19752193   PMID:21435586   PMID:21708940   PMID:22158417   PMID:23633945   PMID:25515214   PMID:26310493   PMID:26925748   PMID:27830143   PMID:29707878  


Genomics

Comparative Map Data
Irak1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0X156,716,469 - 156,726,367 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,716,604 - 156,725,977 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01152,464,303 - 152,474,397 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X159,960,184 - 159,969,180 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1136,116,523 - 136,125,519 (+)NCBICelera
Cytogenetic MapXq37NCBI
IRAK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX154,010,506 - 154,019,902 (-)EnsemblGRCh38hg38GRCh38
GRCh38X154,010,507 - 154,019,984 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X153,275,957 - 153,285,342 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X152,929,151 - 152,938,536 (-)NCBINCBI36hg18NCBI36
Build 34X152,796,808 - 152,806,189NCBI
CeleraX153,509,662 - 153,519,047 (-)NCBI
Cytogenetic MapXq28NCBI
HuRefX141,927,208 - 141,942,770 (-)NCBIHuRef
CHM1_1X153,150,366 - 153,159,748 (-)NCBICHM1_1
Irak1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X73,057,520 - 73,067,527 (-)NCBI
GRCm38X74,013,914 - 74,023,921 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX74,013,914 - 74,023,918 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X71,259,253 - 71,269,260 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X70,267,692 - 70,276,641 (-)NCBImm8
CeleraX65,266,305 - 65,276,311 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX37.61NCBI
Irak1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955580661,609 - 668,622 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955580663,651 - 668,622 (-)NCBIChiLan1.0ChiLan1.0
IRAK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X153,446,827 - 153,458,189 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX153,446,827 - 153,460,602 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X143,560,802 - 143,570,185 (-)NCBI
IRAK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 EnsemblX121,819,432 - 121,862,576 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1X121,853,340 - 121,862,582 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Irak1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936809891,407 - 900,311 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IRAK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX124,717,612 - 124,724,860 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X124,717,604 - 124,724,855 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X142,283,035 - 142,290,286 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IRAK1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 EnsemblX128,433,465 - 128,443,043 (-)Ensembl
ChlSab1.1X128,433,462 - 128,443,126 (-)NCBI
Irak1
(Heterocephalus glaber - naked mole-rat)
No map positions available.

Position Markers
RH131803  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0X156,725,738 - 156,725,936NCBIRnor6.0
Rnor_5.01152,473,772 - 152,473,970UniSTSRnor5.0
RGSC_v3.4X159,959,713 - 159,959,911UniSTSRGSC3.4
Celera1136,125,792 - 136,125,990UniSTS
Cytogenetic MapXq37UniSTS
REN88550  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0X156,716,745 - 156,716,988NCBIRnor6.0
Rnor_5.01152,464,579 - 152,464,822UniSTSRnor5.0
RGSC_v3.4X159,968,661 - 159,968,904UniSTSRGSC3.4
Celera1136,116,799 - 136,117,042UniSTS
Cytogenetic MapXq37UniSTS
REN88551  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0X156,716,728 - 156,716,951NCBIRnor6.0
Rnor_5.01152,464,562 - 152,464,785UniSTSRnor5.0
RGSC_v3.4X159,968,698 - 159,968,921UniSTSRGSC3.4
Celera1136,116,782 - 136,117,005UniSTS
Cytogenetic MapXq37UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X44320616158345622Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X118715462159970021Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X134627816159970021Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:86
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000065177
Prediction methods:Miranda, Rnahybrid
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 43 57 41 19 41 8 11 74 35 35 11 8
Low 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000092207   ⟹   ENSRNOP00000070832
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX156,716,604 - 156,725,977 (+)Ensembl
RefSeq Acc Id: NM_001127555   ⟹   NP_001121027
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X156,716,469 - 156,725,465 (+)NCBI
Rnor_5.01152,464,303 - 152,474,397 (+)NCBI
RGSC_v3.4X159,960,184 - 159,969,180 (-)RGD
Celera1136,116,523 - 136,125,519 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006229598   ⟹   XP_006229660
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X156,716,489 - 156,726,367 (+)NCBI
Rnor_5.01152,464,303 - 152,474,397 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001121027 (Get FASTA)   NCBI Sequence Viewer  
  XP_006229660 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI66780 (Get FASTA)   NCBI Sequence Viewer  
  EDL84996 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001121027   ⟸   NM_001127555
- UniProtKB: B2RYH5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006229660   ⟸   XM_006229598
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000070832   ⟸   ENSRNOT00000092207
Protein Domains
Protein kinase

Transcriptome

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

Promoters
RGD ID:13702050
Promoter ID:EPDNEW_R12574
Type:initiation region
Name:Irak1_1
Description:interleukin-1 receptor-associated 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_6.0X156,716,563 - 156,716,623EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563841 AgrOrtholog
Ensembl Genes ENSRNOG00000060869 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000070832 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000092207 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7934982 IMAGE-MGC_LOAD
InterPro DEATH-like_dom UniProtKB/TrEMBL
  Death_domain UniProtKB/TrEMBL
  Death_IRAK1 UniProtKB/TrEMBL
  IRAK1 UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/TrEMBL
KEGG Report rno:363520 UniProtKB/TrEMBL
MGC_CLONE MGC:188560 IMAGE-MGC_LOAD
NCBI Gene 363520 ENTREZGENE
PANTHER PTHR24419:SF1 UniProtKB/TrEMBL
Pfam Death UniProtKB/TrEMBL
  Pkinase UniProtKB/TrEMBL
PhenoGen Irak1 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP DEATH_like UniProtKB/TrEMBL
  Kinase_like UniProtKB/TrEMBL
UniGene Rn.22238 ENTREZGENE
UniProt B2RYH5 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F1LSW4 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Irak1  interleukin-1 receptor-associated kinase 1   Irak1_predicted  interleukin-1 receptor-associated kinase 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Irak1_predicted  interleukin-1 receptor-associated kinase 1 (predicted)  RGD1563841_predicted  similar to interleukin-1 receptor associated kinase 1 splice form 3 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1563841_predicted  similar to interleukin-1 receptor associated kinase 1 splice form 3 (predicted)  LOC363520  similar to interleukin-1 receptor associated kinase 1 splice form 3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC363520  similar to interleukin-1 receptor associated kinase 1 splice form 3      Symbol and Name status set to provisional 70820 PROVISIONAL

 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.