Ikbkg (inhibitor of nuclear factor kappa B kinase regulatory subunit gamma) - Rat Genome Database

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Gene: Ikbkg (inhibitor of nuclear factor kappa B kinase regulatory subunit gamma) Rattus norvegicus
Analyze
Symbol: Ikbkg
Name: inhibitor of nuclear factor kappa B kinase regulatory subunit gamma
RGD ID: 735223
Description: Enables peroxisome proliferator activated receptor binding activity. Predicted to be involved in several processes, including anoikis; regulation of gene expression; and regulation of signal transduction. Predicted to act upstream of or within B cell homeostasis and activation of NF-kappaB-inducing kinase activity. Located in cytosol. Part of IkappaB kinase complex. Used to study irritable bowel syndrome and perinatal necrotizing enterocolitis. Human ortholog(s) of this gene implicated in Behcet's disease; Bloch-Sulzberger syndrome; immunodeficiency 33; and learning disability. Orthologous to human IKBKG (inhibitor of nuclear factor kappa B kinase regulatory subunit gamma); PARTICIPATES IN FasL mediated signaling pathway; interleukin-1 signaling pathway; nuclear factor kappa B signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: I-kappa-B kinase gamma; I-kappa-B kinase subunit gamma; ikB kinase subunit gamma; ikB kinase-associated protein 1; IKK-gamma; IKKAP1; IKKG; inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma; inhibitor of kappaB kinase gamma; inhibitor of nuclear factor kappa B kinase subunit gamma; inhibitor of nuclear factor kappa-B kinase subunit gamma; Nemo; NF-kappa B essential modulator; NF-kappa-B essential modifier; NF-kappa-B essential modulator
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
mRatBN7.2X152,216,485 - 152,241,476 (+)NCBImRatBN7.2
mRatBN7.2 EnsemblX152,216,596 - 152,239,499 (+)Ensembl
Rnor_6.0X156,254,187 - 156,280,046 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,257,173 - 156,270,748 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01151,994,689 - 152,019,874 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X160,386,558 - 160,420,190 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X160,483,372 - 160,496,394 (+)NCBI
Celera1135,659,513 - 135,672,876 (-)NCBICelera
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
1-benzofuran  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-amino-2-deoxy-D-glucopyranose  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (EXP)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
cadmium dichloride  (ISO)
cadmium sulfate  (ISO)
capsiate  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
carnosic acid  (ISO)
chloroprene  (ISO)
chloroquine  (ISO)
chlorpromazine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
curcumin  (ISO)
Decursin  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
diethyl maleate  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
flutamide  (EXP)
furan  (ISO)
hydrazine  (ISO)
hydrogen peroxide  (ISO)
hypochlorous acid  (ISO)
ivermectin  (ISO)
lipopolysaccharide  (ISO)
methotrexate  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N-methylformamide  (ISO)
N-nitrosodiethylamine  (ISO)
N-tosyl-L-phenylalanyl chloromethyl ketone  (ISO)
naphthalene-1,5-diamine  (ISO)
niclosamide  (ISO)
o-anisidine  (ISO)
orphenadrine  (EXP)
ozone  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (EXP,ISO)
PCB138  (EXP)
pentachlorophenol  (ISO)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
trichloroethene  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Cheng MX, etal., J Surg Res. 2012 Aug;176(2):666-71. doi: 10.1016/j.jss.2011.12.005. Epub 2011 Dec 22.
2. Chima RS, etal., Crit Care Med. 2008 Oct;36(10):2849-57.
3. De Plaen IG, etal., Pediatr Res. 2007 Jun;61(6):716-21.
4. Fontan E, etal., FEBS J. 2007 May;274(10):2540-51. Epub 2007 Apr 10.
5. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. GOA data from the GO Consortium
7. Hayden MS and Ghosh S, Cell. 2008 Feb 8;132(3):344-62.
8. Hong S, etal., Mol Pharm. 2012 May 7;9(5):1310-9. doi: 10.1021/mp200591q. Epub 2012 Mar 27.
9. Li L, etal., Zhonghua Er Ke Za Zhi. 2005 Feb;43(2):89-92.
10. Long YM, etal., World J Gastroenterol. 2009 Feb 7;15(5):561-9.
11. OMIM Disease Annotation Pipeline
12. Pipeline to import KEGG annotations from KEGG into RGD
13. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
14. Pizzamiglio MR, etal., PLoS One. 2014 Jan 29;9(1):e87771. doi: 10.1371/journal.pone.0087771. eCollection 2014.
15. RGD automated data pipeline
16. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
17. RGD automated import pipeline for gene-chemical interactions
18. RGD comprehensive gene curation
19. Saito N, etal., J Biol Chem 2003 Nov 21;278(47):46565-75. Epub 2003 Sep 10.
20. Smahi A, etal., Nature. 2000 May 25;405(6785):466-72.
21. Takada H, etal., Clin Genet. 2010 Dec;78(6):575-9. doi: 10.1111/j.1399-0004.2010.01432.x.
22. Tas SW, etal., Arthritis Res Ther. 2006;8(4):R86.
23. Wajant H, etal., Cell Death Differ. 2003 Jan;10(1):45-65.
24. ├śrstavik KH, etal., Am J Med Genet A. 2006 Jan 1;140(1):31-9.
Additional References at PubMed
PMID:11113112   PMID:12235208   PMID:14651848   PMID:14654787   PMID:14743216   PMID:15341735   PMID:15620648   PMID:15946255   PMID:17314283   PMID:17702576   PMID:18462684   PMID:21454665  
PMID:21988832   PMID:23016877   PMID:23091055   PMID:23453807   PMID:23776175   PMID:23778976   PMID:24561039   PMID:25861989   PMID:30561431  


Genomics

Comparative Map Data
Ikbkg
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X152,216,485 - 152,241,476 (+)NCBImRatBN7.2
mRatBN7.2 EnsemblX152,216,596 - 152,239,499 (+)Ensembl
Rnor_6.0X156,254,187 - 156,280,046 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,257,173 - 156,270,748 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01151,994,689 - 152,019,874 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X160,386,558 - 160,420,190 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X160,483,372 - 160,496,394 (+)NCBI
Celera1135,659,513 - 135,672,876 (-)NCBICelera
Cytogenetic MapXq37NCBI
IKBKG
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX154,541,199 - 154,565,046 (+)EnsemblGRCh38hg38GRCh38
GRCh38X154,541,238 - 154,565,046 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X153,769,453 - 153,793,261 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X153,423,653 - 153,446,455 (+)NCBINCBI36hg18NCBI36
Build 34X153,339,765 - 153,356,964NCBI
CeleraX153,931,508 - 153,953,200 (+)NCBI
Cytogenetic MapXq28NCBI
HuRefX142,346,885 - 142,356,952 (+)NCBIHuRef
CHM1_1X153,682,228 - 153,705,030 (+)NCBICHM1_1
Ikbkg
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X73,436,883 - 73,498,013 (+)NCBIGRCm39mm39
GRCm39 EnsemblX73,436,896 - 73,497,460 (+)Ensembl
GRCm38X74,393,233 - 74,456,792 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX74,393,290 - 74,453,854 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X71,638,630 - 71,699,117 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X70,682,424 - 70,704,240 (+)NCBImm8
CeleraX65,647,484 - 65,706,592 (+)NCBICelera
Cytogenetic MapXA7.3NCBI
Ikbkg
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555801,053,823 - 1,069,802 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555801,053,823 - 1,069,802 (+)NCBIChiLan1.0ChiLan1.0
IKBKG
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X153,869,352 - 153,876,677 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX153,854,493 - 153,876,092 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X143,988,720 - 144,010,078 (+)NCBIMhudiblu_PPA_v0panPan3
IKBKG
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X122,232,052 - 122,253,499 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX122,235,878 - 122,250,562 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0X125,373,537 - 125,395,176 (+)NCBI
UMICH_Zoey_3.1X121,142,500 - 121,164,137 (+)NCBI
UNSW_CanFamBas_1.0X123,657,571 - 123,679,200 (+)NCBI
UU_Cfam_GSD_1.0X123,419,351 - 123,440,993 (+)NCBI
Ikbkg
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X119,519,768 - 119,569,193 (+)NCBI
SpeTri2.0NW_0049368091,280,254 - 1,306,964 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IKBKG
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX125,036,508 - 125,056,453 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X125,035,575 - 125,056,445 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X143,478,840 - 143,498,934 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IKBKG
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X128,781,975 - 128,816,039 (+)NCBI
ChlSab1.1 EnsemblX128,787,785 - 128,806,083 (+)Ensembl
Vero_WHO_p1.0NW_02366606566,774,279 - 66,797,151 (+)NCBI
Ikbkg
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624946997,571 - 1,015,748 (+)NCBI

Position Markers
AF069542  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X152,238,286 - 152,238,475 (-)MAPPERmRatBN7.2
Rnor_6.0X156,257,188 - 156,257,376NCBIRnor6.0
Rnor_5.01151,997,690 - 151,997,878UniSTSRnor5.0
RGSC_v3.4X160,420,186 - 160,420,374UniSTSRGSC3.4
Celera1135,659,329 - 135,659,517UniSTS
Cytogenetic MapXq37UniSTS
RH134438  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X152,007,793 - 152,007,978 (-)MAPPERmRatBN7.2
Rnor_6.0X156,487,025 - 156,487,209NCBIRnor6.0
Rnor_5.01152,227,171 - 152,227,355UniSTSRnor5.0
RGSC_v3.4X160,385,406 - 160,385,590UniSTSRGSC3.4
Celera1135,888,751 - 135,888,935UniSTS
Cytogenetic MapXq37UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:83
Count of miRNA genes:75
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000056275
Prediction methods:Microtar, 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 2 29 44 28 19 28 2 2 42 29 34 11 2
Low 1 14 13 13 13 6 9 32 6 7 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_199103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006229580 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006229584 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006229585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773602 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773603 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773604 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773605 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773610 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC094668 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC095267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY392762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000078438   ⟹   ENSRNOP00000075158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,221,280 - 152,239,499 (+)Ensembl
Rnor_6.0 EnsemblX156,257,173 - 156,270,748 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000107762   ⟹   ENSRNOP00000092097
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX152,216,596 - 152,239,499 (+)Ensembl
RefSeq Acc Id: NM_199103   ⟹   NP_954534
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,224,928 - 152,238,291 (+)NCBI
Rnor_6.0X156,257,372 - 156,270,735 (-)NCBI
Rnor_5.01151,994,689 - 152,019,874 (-)NCBI
RGSC_v3.4X160,386,558 - 160,420,190 (+)RGD
Celera1135,659,513 - 135,672,876 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006229580   ⟹   XP_006229642
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,497 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,280,045 (-)NCBI
Rnor_5.01151,994,689 - 152,019,874 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006229584   ⟹   XP_006229646
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,221,299 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,274,119 (-)NCBI
Rnor_5.01151,994,689 - 152,019,874 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006229585   ⟹   XP_006229647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,221,299 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,274,119 (-)NCBI
Rnor_5.01151,994,689 - 152,019,874 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773600   ⟹   XP_008771822
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,485 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,278,760 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773601   ⟹   XP_008771823
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,485 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,280,046 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773602   ⟹   XP_008771824
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,485 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,280,046 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773603   ⟹   XP_008771825
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,485 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,280,046 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773604   ⟹   XP_008771826
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,497 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,278,759 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773605   ⟹   XP_008771827
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,486 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,278,760 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773606   ⟹   XP_008771828
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,487 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,278,760 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773607   ⟹   XP_008771829
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,216,489 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,278,759 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773608   ⟹   XP_008771830
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,221,299 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,274,120 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008773610   ⟹   XP_008771832
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,221,299 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,274,120 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017602025   ⟹   XP_017457514
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X152,224,068 - 152,241,476 (+)NCBI
Rnor_6.0X156,254,187 - 156,274,120 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_954534   ⟸   NM_199103
- UniProtKB: Q6TMG5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006229642   ⟸   XM_006229580
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006229647   ⟸   XM_006229585
- Peptide Label: isoform X6
- UniProtKB: Q6TMG5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006229646   ⟸   XM_006229584
- Peptide Label: isoform X6
- UniProtKB: Q6TMG5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008771823   ⟸   XM_008773601
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008771824   ⟸   XM_008773602
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008771825   ⟸   XM_008773603
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008771828   ⟸   XM_008773606
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008771826   ⟸   XM_008773604
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008771827   ⟸   XM_008773605
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008771822   ⟸   XM_008773600
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008771829   ⟸   XM_008773607
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008771832   ⟸   XM_008773610
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008771830   ⟸   XM_008773608
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017457514   ⟸   XM_017602025
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000075158   ⟸   ENSRNOT00000078438
RefSeq Acc Id: ENSRNOP00000092097   ⟸   ENSRNOT00000107762

Transcriptome

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


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)
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)
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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)
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)
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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)
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
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)
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
LEXF2B/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
LEXF3/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
LEXF4/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
LH/MavRrrc (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
LH/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (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
LL/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (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: 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)
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
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)
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
MNS/Gib (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
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)
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
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)
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
SBN/Ygl (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: 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)
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/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)
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
SHRSP/Gcrc (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
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)
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: 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)
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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:735223 AgrOrtholog
Ensembl Genes ENSRNOG00000060936 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000075158 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000078438 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro CC2-LZ_dom UniProtKB/Swiss-Prot
  NEMO_N UniProtKB/Swiss-Prot
  NEMO_ZF UniProtKB/Swiss-Prot
KEGG Report rno:309295 UniProtKB/Swiss-Prot
NCBI Gene 309295 ENTREZGENE
Pfam CC2-LZ UniProtKB/Swiss-Prot
  NEMO UniProtKB/Swiss-Prot
PhenoGen Ikbkg PhenoGen
PROSITE ZF_CCHC_NOA UniProtKB/Swiss-Prot
UniProt NEMO_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-10 Ikbkg  inhibitor of nuclear factor kappa B kinase regulatory subunit gamma  Ikbkg  inhibitor of nuclear factor kappa B kinase subunit gamma  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-02-01 Ikbkg  inhibitor of nuclear factor kappa B kinase subunit gamma  Ikbkg  inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-05-27 Ikbkg  inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma  Ikbkg  inhibitor of kappaB kinase gamma  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-08 Ikbkg  inhibitor of kappaB kinase gamma    inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma  Name updated 1299863 APPROVED