Daxx (death-domain associated protein) - Rat Genome Database

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Gene: Daxx (death-domain associated protein) Rattus norvegicus
Analyze
Symbol: Daxx
Name: death-domain associated protein
RGD ID: 621227
Description: Enables JUN kinase binding activity; androgen receptor binding activity; and kinesin binding activity. Involved in several processes, including PML body organization; cellular response to anoxia; and positive regulation of histone phosphorylation. Located in several cellular components, including PML body; XY body; and microtubule. Used to study transient cerebral ischemia. Human ortholog(s) of this gene implicated in islet cell tumor and ovary epithelial cancer. Orthologous to human DAXX (death domain associated protein); PARTICIPATES IN aldosterone signaling pathway; histone modification pathway; p53 signaling pathway; INTERACTS WITH 2,4-dinitrotoluene; acetamide; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: death domain-associated protein 6; Fas death domain-associated protein; MGC156601
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
mRatBN7.2204,970,090 - 4,976,145 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl204,970,092 - 4,975,843 (-)Ensembl
Rnor_6.0205,480,103 - 5,485,962 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,480,103 - 5,485,926 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,538,715 - 7,544,538 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4205,121,854 - 5,127,601 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1205,122,244 - 5,126,875 (-)NCBI
Celera206,554,093 - 6,559,840 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
acetamide  (EXP)
acrolein  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
aluminium atom  (ISO)
aluminium sulfate (anhydrous)  (ISO)
aluminium(0)  (ISO)
ammonium chloride  (EXP)
antimycin A  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
chromium atom  (EXP)
cisplatin  (ISO)
cladribine  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
deguelin  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dicrotophos  (ISO)
dieldrin  (EXP)
disodium selenite  (ISO)
doxorubicin  (ISO)
edaravone  (EXP)
ellagic acid  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenpyroximate  (ISO)
fipronil  (EXP)
folic acid  (ISO)
glucose  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel dichloride  (EXP)
olmesartan  (ISO)
oxybenzone  (EXP)
ozone  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (EXP,ISO)
pentachlorophenol  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 203580  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of protein kinase activity  (IEA)
androgen receptor signaling pathway  (IEA,ISO)
apoptotic process  (IEA)
apoptotic signaling pathway  (ISO)
cell population proliferation  (ISO)
cellular response to anoxia  (IEP)
cellular response to cadmium ion  (IEA,ISO,ISS)
cellular response to copper ion  (IEA,ISO,ISS)
cellular response to diamide  (IEA,ISO,ISS)
cellular response to heat  (IEA,ISO,ISS)
cellular response to sodium arsenite  (IEA,ISO,ISS)
cellular response to tumor necrosis factor  (IEP)
cellular response to unfolded protein  (IEA,ISO,ISS)
chromatin organization  (IEA)
chromatin remodeling  (IEA,ISO)
extrinsic apoptotic signaling pathway via death domain receptors  (ISO)
JNK cascade  (ISO)
mitotic cytokinesis  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of gene expression  (ISO,ISS)
negative regulation of myotube differentiation  (IDA)
negative regulation of transcription by RNA polymerase II  (IDA)
negative regulation of transcription, DNA-templated  (IBA,IEA,ISO,ISS)
nucleosome assembly  (IBA,IEA,ISO)
PML body organization  (IMP)
positive regulation of apoptotic process  (IMP)
positive regulation of apoptotic signaling pathway  (ISO)
positive regulation of histone phosphorylation  (IMP)
positive regulation of neuron death  (IEA,ISO)
positive regulation of protein kinase activity  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription, DNA-templated  (IEA)
protein localization to chromatin  (ISO)
regulation of apoptotic process  (IBA)
regulation of gene expression  (ISO)
regulation of multicellular organism growth  (ISO)
regulation of protein ubiquitination  (IEA,ISO,ISS)
regulation of transcription, DNA-templated  (IEA,ISO)
response to metal ion  (IEP)

Cellular Component
cell body  (IDA)
cell cortex  (IDA)
chromosome  (IEA)
chromosome, centromeric region  (IEA,ISO)
cytoplasm  (IDA,IEA)
cytosol  (ISO,ISS)
heterochromatin  (ISO)
microtubule  (IDA)
neuron projection  (IDA)
nuclear body  (ISO)
nucleolus  (IEA)
nucleoplasm  (ISO)
nucleus  (IDA,IEA,ISO,ISS)
PML body  (IBA,IDA,IEA,ISO,ISS)
XY body  (IDA)

References

References - curated
1. Bi FF, etal., Brain Res. 2008 Jan 29;1191:30-8. Epub 2007 Nov 12.
2. Burgess RJ and Zhang Z, Nat Struct Mol Biol. 2013 Jan;20(1):14-22. doi: 10.1038/nsmb.2461.
3. Chen SF, etal., Hum Pathol. 2013 Oct;44(10):2199-203. doi: 10.1016/j.humpath.2013.04.025. Epub 2013 Aug 16.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Gupta A, etal., J Cell Biochem. 2009 Jun 1;107(3):438-47. doi: 10.1002/jcb.22140.
6. Jiao Y, etal., Science. 2011 Mar 4;331(6021):1199-203. doi: 10.1126/science.1200609. Epub 2011 Jan 20.
7. Jung YS, etal., FEBS Lett. 2007 Mar 6;581(5):843-52. Epub 2007 Feb 2.
8. Kim HS, etal., Anticancer Res. 2015 Jun;35(6):3501-10.
9. Lalioti VS, etal., J Cell Physiol. 2009 Feb;218(2):416-26. doi: 10.1002/jcp.21614.
10. Liu J, etal., Zhongguo Dang Dai Er Ke Za Zhi. 2007 Feb;9(1):33-6.
11. Ma Q and Devarajan P, Kidney Int. 2008 Aug;74(3):310-8. doi: 10.1038/ki.2008.192. Epub 2008 May 14.
12. MGD data from the GO Consortium
13. Mizuta H and Kuroda Y, Cell Biol Int 2004;28(8-9):609-14.
14. NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. Niu YL, etal., Arch Biochem Biophys. 2011 Nov;515(1-2):89-98. doi: 10.1016/j.abb.2011.07.016. Epub 2011 Aug 6.
16. Pan WW, etal., J Biol Chem. 2013 May 10;288(19):13620-30. doi: 10.1074/jbc.M112.446369. Epub 2013 Mar 28.
17. Pipeline to import KEGG annotations from KEGG into RGD
18. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
19. Rafael AI, etal., Toxicol Appl Pharmacol. 2007 Oct 15;224(2):163-73. Epub 2007 Jul 18.
20. RGD automated data pipeline
21. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
22. RGD automated import pipeline for gene-chemical interactions
23. Rogers RS, etal., Chromosoma. 2004 Nov;113(5):233-43. Epub 2004 Sep 3.
24. Schreiner S, etal., J Virol. 2011 Sep;85(17):8752-65. doi: 10.1128/JVI.00440-11. Epub 2011 Jun 22.
25. Shinoda S, etal., Eur J Neurosci. 2003 May;17(10):2065-76.
26. Tsourlakis MC, etal., Hum Pathol. 2013 Sep;44(9):1789-96. doi: 10.1016/j.humpath.2013.01.022. Epub 2013 May 2.
27. Tzeng SL, etal., J Biol Chem. 2006 Jun 2;281(22):15405-11. Epub 2006 Mar 28.
28. Walter L and Gunther E, Immunogenetics 2000 Aug;51(10):829-37.
29. Xiao B, etal., Neurotox Res. 2007 Oct;12(3):155-62.
30. Yang J and Fuller PJ, Mol Cell Endocrinol. 2012 Mar 24;350(2):196-205. doi: 10.1016/j.mce.2011.07.001. Epub 2011 Jul 18.
31. Yun HJ, etal., EMBO J. 2011 May 13;30(12):2465-76. doi: 10.1038/emboj.2011.152.
32. Zizzi A, etal., Diagn Pathol. 2013 Jul 2;8:111. doi: 10.1186/1746-1596-8-111.
Additional References at PubMed
PMID:10444590   PMID:10504293   PMID:10669754   PMID:10684855   PMID:10698492   PMID:11799127   PMID:11971979   PMID:12140263   PMID:12477932   PMID:12529400   PMID:12917339   PMID:15016915  
PMID:15060004   PMID:15252119   PMID:15572661   PMID:15878163   PMID:15983381   PMID:16845383   PMID:17081986   PMID:18200667   PMID:18566590   PMID:19017466   PMID:19198660   PMID:20211137  
PMID:20504901   PMID:20651253   PMID:21134643   PMID:22500635   PMID:23444137   PMID:26812044   PMID:27733539   PMID:28501693  


Genomics

Comparative Map Data
Daxx
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2204,970,090 - 4,976,145 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl204,970,092 - 4,975,843 (-)Ensembl
Rnor_6.0205,480,103 - 5,485,962 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,480,103 - 5,485,926 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,538,715 - 7,544,538 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4205,121,854 - 5,127,601 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1205,122,244 - 5,126,875 (-)NCBI
Celera206,554,093 - 6,559,840 (-)NCBICelera
Cytogenetic Map20p12NCBI
DAXX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl633,318,558 - 33,323,016 (-)EnsemblGRCh38hg38GRCh38
GRCh38633,318,558 - 33,322,959 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37633,286,335 - 33,290,736 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36633,394,367 - 33,398,682 (-)NCBINCBI36hg18NCBI36
Build 34633,394,380 - 33,398,682NCBI
Celera634,840,701 - 34,845,159 (-)NCBI
Cytogenetic Map6p21.32NCBI
HuRef633,027,906 - 33,032,806 (-)NCBIHuRef
CHM1_1633,288,251 - 33,292,710 (-)NCBICHM1_1
Daxx
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,128,379 - 34,134,564 (+)NCBIGRCm39mm39
GRCm39 Ensembl1734,128,388 - 34,134,564 (+)Ensembl
GRCm381733,909,404 - 33,915,590 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1733,909,414 - 33,915,590 (+)EnsemblGRCm38mm10GRCm38
MGSCv371734,046,443 - 34,052,534 (+)NCBIGRCm37mm9NCBIm37
MGSCv361733,520,055 - 33,526,038 (+)NCBImm8
Celera1736,662,421 - 36,668,513 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1717.98NCBI
Daxx
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554371,869,572 - 1,873,050 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554371,869,692 - 1,874,041 (-)NCBIChiLan1.0ChiLan1.0
DAXX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1634,004,362 - 34,008,819 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl634,004,543 - 34,008,717 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0632,890,846 - 32,895,307 (-)NCBIMhudiblu_PPA_v0panPan3
DAXX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1122,755,960 - 2,760,687 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl122,755,960 - 2,761,340 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha122,836,834 - 2,841,133 (-)NCBI
ROS_Cfam_1.0123,087,394 - 3,092,130 (-)NCBI
ROS_Cfam_1.0 Ensembl123,087,394 - 3,091,799 (-)Ensembl
UMICH_Zoey_3.1122,754,580 - 2,759,316 (-)NCBI
UNSW_CanFamBas_1.0122,835,893 - 2,840,633 (-)NCBI
UU_Cfam_GSD_1.0122,910,802 - 2,915,532 (-)NCBI
Daxx
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494638,409,877 - 38,414,723 (-)NCBI
SpeTri2.0NW_00493647625,546,091 - 25,550,390 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DAXX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl729,676,854 - 29,681,110 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1729,676,854 - 29,681,145 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2734,180,626 - 34,184,902 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DAXX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11738,754,227 - 38,758,714 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1738,754,280 - 38,759,071 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604433,153,334 - 33,157,792 (-)NCBIVero_WHO_p1.0
Daxx
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475423,504,465 - 23,509,034 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
AA926063  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,976,497 - 4,976,712 (+)MAPPERmRatBN7.2
Rnor_6.0205,486,510 - 5,486,724NCBIRnor6.0
Rnor_5.0207,545,122 - 7,545,336UniSTSRnor5.0
RGSC_v3.4205,128,261 - 5,128,475UniSTSRGSC3.4
Celera206,560,500 - 6,560,714UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
7175096Tcs1T cell selection QTL 1T cell selectionexpression2047270785024580Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:27
Count of miRNA genes:24
Interacting mature miRNAs:27
Transcripts:ENSRNOT00000000559
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 27 38 23 19 23 1 68 30 41 11
Low 16 19 18 18 8 10 6 5 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_080891 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601534 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB064671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC128962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC128729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000324 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000000559   ⟹   ENSRNOP00000000559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,970,092 - 4,975,834 (-)Ensembl
Rnor_6.0 Ensembl205,480,103 - 5,485,850 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092272   ⟹   ENSRNOP00000075785
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,483,985 - 5,485,837 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092479
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,480,104 - 5,481,955 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092597   ⟹   ENSRNOP00000075764
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,970,778 - 4,975,843 (-)Ensembl
Rnor_6.0 Ensembl205,480,112 - 5,485,926 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,485,051 - 5,485,829 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092697
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl205,483,663 - 5,484,427 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119385   ⟹   ENSRNOP00000096625
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl204,970,195 - 4,975,773 (-)Ensembl
RefSeq Acc Id: NM_080891   ⟹   NP_543167
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,838 (-)NCBI
Rnor_6.0205,480,103 - 5,485,850 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
RGSC_v3.4205,121,854 - 5,127,601 (-)RGD
Celera206,554,093 - 6,559,840 (-)RGD
Sequence:
RefSeq Acc Id: XM_006256103   ⟹   XP_006256165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,855 (-)NCBI
Rnor_6.0205,480,333 - 5,485,247 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256104   ⟹   XP_006256166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,852 (-)NCBI
Rnor_6.0205,480,333 - 5,485,869 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256105   ⟹   XP_006256167
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,866 (-)NCBI
Rnor_6.0205,480,333 - 5,485,869 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256106   ⟹   XP_006256168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,864 (-)NCBI
Rnor_6.0205,480,333 - 5,485,869 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256107   ⟹   XP_006256169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,852 (-)NCBI
Rnor_6.0205,480,333 - 5,485,869 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256108   ⟹   XP_006256170
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,976,145 (-)NCBI
Rnor_6.0205,480,333 - 5,485,962 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006256110   ⟹   XP_006256172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,976,140 (-)NCBI
Rnor_6.0205,480,103 - 5,485,962 (-)NCBI
Rnor_5.0207,538,715 - 7,544,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601534   ⟹   XP_017457023
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,855 (-)NCBI
Rnor_6.0205,480,333 - 5,485,869 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098391   ⟹   XP_038954319
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,855 (-)NCBI
RefSeq Acc Id: XM_039098392   ⟹   XP_038954320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,970,090 - 4,975,866 (-)NCBI
RefSeq Acc Id: XM_039098393   ⟹   XP_038954321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,972,301 - 4,975,855 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_543167   ⟸   NM_080891
- UniProtKB: Q6MGC8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256172   ⟸   XM_006256110
- Peptide Label: isoform X2
- UniProtKB: Q6MGC8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256170   ⟸   XM_006256108
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006256168   ⟸   XM_006256106
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006256167   ⟸   XM_006256105
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006256169   ⟸   XM_006256107
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006256166   ⟸   XM_006256104
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006256165   ⟸   XM_006256103
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457023   ⟸   XM_017601534
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000075785   ⟸   ENSRNOT00000092272
RefSeq Acc Id: ENSRNOP00000075764   ⟸   ENSRNOT00000092597
RefSeq Acc Id: ENSRNOP00000000559   ⟸   ENSRNOT00000000559
RefSeq Acc Id: XP_038954320   ⟸   XM_039098392
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954319   ⟸   XM_039098391
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954321   ⟸   XM_039098393
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000096625   ⟸   ENSRNOT00000119385
Protein Domains
Daxx

Transcriptome

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

Promoters
RGD ID:13701419
Promoter ID:EPDNEW_R11940
Type:multiple initiation site
Name:Daxx_1
Description:death-domain associated protein
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_6.0205,485,833 - 5,485,893EPDNEW

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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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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
Damaging Variants


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 7540624 7540625 G A snv LH/MavRrrc (KNAW), LE/Stm (KyushuU), SBH/Ygl (KNAW), M520/N (KNAW), LE/Stm (SOLiD) (KNAW), LE/Stm (Illumina) (KNAW), BUF/N (KNAW), SBH/Ygl (MCW), LN/MavRrrc (KNAW)
20 7540638 7540639 G A snv SHRSP/Gcrc (KNAW), SHR/OlaIpcvPrin (KNAW), SHR/OlaIpcv (KNAW), SHR/NHsd (KNAW), SHR/NCrlPrin (KNAW), GK/Ox (KNAW)
20 7542553 7542554 G A snv RCS/Kyo (KyushuU)


Assembly: mRatBN7.2
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 4971999 4972000 G A snv BUF/N (2020), FXLE16/Stm (2020), M520/N (2020), M520/NRrrcMcwi (2019), LEXF10A/StmMcwi (2020), LN/MavRrrcAek (2020), LH/MavRrrcAek (2020), LEXF4/Stm (2020), LE/Stm (2019)
20 4972013 4972014 G A snv HXB2/IpcvMcwi (2019), GK/FarMcwi (2019), BXH2/CubMcwi (2020), SHRSP/A3NCrl (2019), HXB31/IpcvMcwi (2019), SHR/OlalpcvMcwi (2019)


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 5482012 5482013 G A snv SBH/Ygl (MCW), Buf/N (MCW), M520/N (2020), M520/NRrrcMcwi (2019), LEXF10A/StmMcwi (2020), LN/MavRrrcAek (2020), LH/MavRrrcAek (2020), LE/Stm (2019), LEXF4/Stm (2020), FXLE16/Stm (2020), BUF/N (2020), M520/N (MCW), LE/Stm (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), SBH/Ygl (RGD)
20 5482026 5482027 G A snv SHRSP/Gcrc (RGD), SHR/NHsd (RGD), GK/Ox (RGD), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB2/IpcvMcwi (2019), GK/FarMcwi (2019), BXH2/CubMcwi (2020)
20 5482220 5482221 G C snv LEW/Crl (RGD)


Assembly: RGSC_v3.4
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
20 5123763 5123764 G A snv LE/Stm (KNAW), HCR/2Mco (UMich), LCR/1Mco (UMich), HCR/1Mco (UMich), SBH/Ygl (ICL), LN/MavRrrc (ICL), LH/MavRrrc (ICL), BUF/N (KNAW), LCR/2Mco (UMich), M520/N (KNAW), LE/Stm (ICL)
20 5123777 5123778 G A snv SHRSP/Gcrc (ICL), SHR/NHsd (ICL), SHR/OlaIpcv (ICL), GK/Ox (ICL), SHR/OlaIpcv (KNAW), SHRSP/Gcrc (MDC), SHR/OlaIpcv (ICL)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621227 AgrOrtholog
Ensembl Genes ENSRNOG00000000477 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000559 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075764 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075785 UniProtKB/TrEMBL
  ENSRNOP00000096625 ENTREZGENE
Ensembl Transcript ENSRNOT00000000559 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000092272 UniProtKB/TrEMBL
  ENSRNOT00000092597 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000119385 ENTREZGENE
Gene3D-CATH 1.10.8.810 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8366304 IMAGE-MGC_LOAD
InterPro Daxx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Daxx_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Daxx_N_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:140926 UniProtKB/TrEMBL
MGC_CLONE MGC:156601 IMAGE-MGC_LOAD
NCBI Gene 140926 ENTREZGENE
PANTHER PTHR12766:SF7 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Daxx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Daxx PhenoGen
UniProt A0A0U1RRR8_RAT UniProtKB/TrEMBL
  DAXX_RAT UniProtKB/Swiss-Prot
  Q6MGC8 ENTREZGENE, UniProtKB/TrEMBL
  Q8VIB2 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-25 Daxx  death-domain associated protein  Daxx  Fas death domain-associated protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 Daxx  Fas death domain-associated protein      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Daxx  Fas death domain-associated protein      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_mapping found within the rat major histocompatibility RT1 complex 1300431