Nfat5 (nuclear factor of activated T-cells 5) - Rat Genome Database

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Gene: Nfat5 (nuclear factor of activated T-cells 5) Rattus norvegicus
Analyze
Symbol: Nfat5
Name: nuclear factor of activated T-cells 5
RGD ID: 1309142
Description: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in response to osmotic stress. Located in cytoplasm and nucleus. Orthologous to human NFAT5 (nuclear factor of activated T cells 5); PARTICIPATES IN B cell receptor signaling pathway; T cell receptor signaling pathway; vascular endothelial growth factor signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 5-azaorotic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: NF-AT5; Nfat; nuclear factor of activated T-cells 5, tonicity-responsive; T-cell transcription factor NFAT5; TonEBP
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
mRatBN7.21935,199,737 - 35,286,675 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1935,199,016 - 35,286,675 (+)Ensembl
Rnor_6.01938,446,059 - 38,533,735 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1938,446,059 - 38,533,735 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01950,363,699 - 50,398,311 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01949,320,570 - 49,403,625 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41937,154,326 - 37,242,191 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11937,093,773 - 37,238,503 (+)NCBI
Celera1934,621,583 - 34,708,117 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
(-)-demecolcine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-azaorotic acid  (EXP)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
allopurinol  (EXP,ISO)
alpha-pinene  (ISO)
apigenin  (ISO)
Aroclor 1254  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
carmustine  (ISO)
cerium trichloride  (ISO)
chlorpyrifos  (EXP)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
D-mannitol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP)
dichloromethane  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP)
elemental selenium  (ISO)
endosulfan  (EXP,ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
ethylbenzene  (ISO)
formaldehyde  (ISO)
geldanamycin  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
indometacin  (ISO)
lipopolysaccharide  (ISO)
luteolin  (ISO)
maleic acid  (ISO)
maneb  (ISO)
methamphetamine  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
myxothiazol  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (EXP)
nickel subsulfide  (EXP)
o-xylene  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
progesterone  (EXP)
pyridaben  (ISO)
quartz  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium chloride  (ISO)
succimer  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
testosterone enanthate  (ISO)
thimerosal  (ISO)
toluene  (ISO)
topotecan  (EXP)
trichloroethene  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
vincristine  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IDA,ISO)
cytosol  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IDA,IEA,ISO)
transcription regulator complex  (IBA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:10860829   PMID:11485737   PMID:11780147   PMID:11934689   PMID:12370307   PMID:12824075   PMID:15247427   PMID:15790681   PMID:16772300   PMID:17105721   PMID:17153592   PMID:17371162  
PMID:17533154   PMID:18502201   PMID:18945830   PMID:19008713   PMID:19052532   PMID:19138132   PMID:19147493   PMID:19188439   PMID:20142563   PMID:20368270   PMID:21209322   PMID:21357543  
PMID:21757659   PMID:22082260   PMID:22768306   PMID:23180003   PMID:25515214   PMID:25858778   PMID:27235345   PMID:27779669   PMID:27838821   PMID:28674405   PMID:28842479   PMID:30332317  
PMID:30664212   PMID:31883300   PMID:32239388  


Genomics

Comparative Map Data
Nfat5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21935,199,737 - 35,286,675 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1935,199,016 - 35,286,675 (+)Ensembl
Rnor_6.01938,446,059 - 38,533,735 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1938,446,059 - 38,533,735 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01950,363,699 - 50,398,311 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01949,320,570 - 49,403,625 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41937,154,326 - 37,242,191 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11937,093,773 - 37,238,503 (+)NCBI
Celera1934,621,583 - 34,708,117 (+)NCBICelera
Cytogenetic Map19q12NCBI
NFAT5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1669,565,094 - 69,704,666 (+)EnsemblGRCh38hg38GRCh38
GRCh381669,565,952 - 69,704,654 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371669,599,869 - 69,738,557 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361668,156,498 - 68,296,054 (+)NCBINCBI36hg18NCBI36
Celera1654,113,571 - 54,253,111 (+)NCBI
Cytogenetic Map16q22.1NCBI
HuRef1655,478,121 - 55,616,752 (+)NCBIHuRef
CHM1_11671,007,818 - 71,146,456 (+)NCBICHM1_1
Nfat5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398108,020,072 - 108,106,149 (+)NCBIGRCm39mm39
GRCm39 Ensembl8108,020,102 - 108,106,149 (+)Ensembl
GRCm388107,293,435 - 107,379,517 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8107,293,470 - 107,379,517 (+)EnsemblGRCm38mm10GRCm38
MGSCv378109,817,370 - 109,903,417 (+)NCBIGRCm37mm9NCBIm37
MGSCv368110,182,991 - 110,268,646 (+)NCBImm8
Celera8111,523,092 - 111,609,223 (+)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.93NCBI
Nfat5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554847,034,799 - 7,142,883 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554847,034,799 - 7,142,883 (-)NCBIChiLan1.0ChiLan1.0
NFAT5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11669,327,470 - 69,462,251 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1669,327,470 - 69,462,251 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01649,942,461 - 50,080,519 (+)NCBIMhudiblu_PPA_v0panPan3
NFAT5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1579,995,292 - 80,115,116 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl580,003,587 - 80,115,096 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha579,984,111 - 80,105,721 (-)NCBI
ROS_Cfam_1.0580,425,837 - 80,547,558 (-)NCBI
UMICH_Zoey_3.1580,253,618 - 80,375,936 (-)NCBI
UNSW_CanFamBas_1.0579,943,167 - 80,064,783 (-)NCBI
UU_Cfam_GSD_1.0580,576,081 - 80,698,426 (-)NCBI
Nfat5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934939,830,178 - 39,928,927 (-)NCBI
SpeTri2.0NW_00493647519,658,917 - 19,758,936 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NFAT5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl617,313,388 - 17,434,926 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1617,313,511 - 17,434,951 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2616,252,167 - 16,381,341 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NFAT5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1557,705,022 - 57,838,569 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl557,709,277 - 57,838,704 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604720,430,610 - 20,568,859 (-)NCBIVero_WHO_p1.0
Nfat5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474616,684,556 - 16,818,321 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D19Got27  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21935,135,347 - 35,135,584 (+)MAPPERmRatBN7.2
Rnor_6.01939,430,434 - 39,430,670NCBIRnor6.0
Rnor_5.01950,294,454 - 50,294,690UniSTSRnor5.0
RGSC_v3.41937,089,323 - 37,089,567RGDRGSC3.4
RGSC_v3.41937,089,324 - 37,089,567UniSTSRGSC3.4
RGSC_v3.11937,094,205 - 37,094,448RGD
RH 3.4 Map19314.9UniSTS
RH 3.4 Map19314.9RGD
RH 2.0 Map19433.6RGD
Cytogenetic Map19q12UniSTS
D19Got110  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21935,227,931 - 35,228,070 (-)MAPPERmRatBN7.2
mRatBN7.21935,227,931 - 35,228,070 (+)MAPPERmRatBN7.2
Rnor_6.01938,504,660 - 38,504,798NCBIRnor6.0
Rnor_6.01939,529,896 - 39,530,034NCBIRnor6.0
Rnor_5.01950,391,893 - 50,392,031UniSTSRnor5.0
Rnor_5.01949,374,557 - 49,374,695UniSTSRnor5.0
RGSC_v3.41937,183,248 - 37,183,386UniSTSRGSC3.4
Celera1934,649,306 - 34,649,444UniSTS
Cytogenetic Map19q12UniSTS
RH133372  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21935,271,667 - 35,271,873 (-)MAPPERmRatBN7.2
Rnor_6.01938,460,859 - 38,461,064NCBIRnor6.0
Rnor_5.01949,330,552 - 49,330,757UniSTSRnor5.0
RGSC_v3.41937,227,186 - 37,227,391UniSTSRGSC3.4
Celera1934,693,121 - 34,693,326UniSTS
RH 3.4 Map19314.5UniSTS
Cytogenetic Map19q12UniSTS
RH142814  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21935,280,159 - 35,280,266 (-)MAPPERmRatBN7.2
Rnor_6.01938,452,466 - 38,452,572NCBIRnor6.0
Rnor_5.01949,322,159 - 49,322,265UniSTSRnor5.0
RGSC_v3.41937,235,678 - 37,235,784UniSTSRGSC3.4
Celera1934,701,613 - 34,701,719UniSTS
RH 3.4 Map19293.7UniSTS
Cytogenetic Map19q12UniSTS
UniSTS:224902  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21935,286,464 - 35,286,617 (-)MAPPERmRatBN7.2
Rnor_6.01938,446,117 - 38,446,269NCBIRnor6.0
Rnor_5.01949,315,810 - 49,315,962UniSTSRnor5.0
RGSC_v3.41937,241,981 - 37,242,133UniSTSRGSC3.4
Celera1934,707,907 - 34,708,059UniSTS
Cytogenetic Map19q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192481797839654489Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)192753020737947399Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)192753020737947399Rat
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)192753020737947399Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1085
Count of miRNA genes:352
Interacting mature miRNAs:494
Transcripts:ENSRNOT00000017005
Prediction methods:Microtar, Miranda, 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 40 28 12 19 12 4 4 74 35 37 11 4
Low 3 29 29 29 4 7 4 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107425 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003751872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772505 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097749 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000017005   ⟹   ENSRNOP00000017005
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1935,199,738 - 35,286,675 (+)Ensembl
Rnor_6.0 Ensembl1938,446,059 - 38,533,735 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077960   ⟹   ENSRNOP00000071907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1935,199,738 - 35,278,997 (+)Ensembl
Rnor_6.0 Ensembl1938,454,628 - 38,484,611 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094607   ⟹   ENSRNOP00000083454
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1935,199,016 - 35,286,675 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102316   ⟹   ENSRNOP00000097702
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1935,243,880 - 35,286,675 (+)Ensembl
RefSeq Acc Id: NM_001107425   ⟹   NP_001100895
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,199,738 - 35,286,675 (+)NCBI
Rnor_6.01938,446,059 - 38,533,735 (-)NCBI
Rnor_5.01950,363,699 - 50,398,311 (+)NCBI
RGSC_v3.41937,154,326 - 37,242,191 (+)RGD
Celera1934,621,583 - 34,708,117 (+)RGD
Sequence:
RefSeq Acc Id: XM_003751872   ⟹   XP_003751920
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,199,737 - 35,286,671 (+)NCBI
Rnor_6.01938,451,557 - 38,533,720 (-)NCBI
Rnor_5.01949,320,570 - 49,403,625 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006255555   ⟹   XP_006255617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,234,218 - 35,286,671 (+)NCBI
Rnor_6.01938,451,557 - 38,531,186 (-)NCBI
Rnor_5.01949,320,570 - 49,403,625 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006255556   ⟹   XP_006255618
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,234,216 - 35,286,671 (+)NCBI
Rnor_6.01938,451,557 - 38,531,186 (-)NCBI
Rnor_5.01949,320,570 - 49,403,625 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772503   ⟹   XP_008770725
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,199,737 - 35,286,671 (+)NCBI
Rnor_6.01938,451,557 - 38,533,720 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772505   ⟹   XP_008770727
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,247,398 - 35,286,671 (+)NCBI
Rnor_6.01938,451,557 - 38,531,186 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017601291   ⟹   XP_017456780
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,234,218 - 35,286,671 (+)NCBI
Rnor_6.01938,451,557 - 38,531,186 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039097747   ⟹   XP_038953675
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,199,738 - 35,286,671 (+)NCBI
RefSeq Acc Id: XM_039097748   ⟹   XP_038953676
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,235,110 - 35,286,671 (+)NCBI
RefSeq Acc Id: XM_039097749   ⟹   XP_038953677
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,234,218 - 35,286,671 (+)NCBI
RefSeq Acc Id: XM_039097750   ⟹   XP_038953678
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,235,109 - 35,286,671 (+)NCBI
RefSeq Acc Id: XM_039097751   ⟹   XP_038953679
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,248,077 - 35,286,671 (+)NCBI
RefSeq Acc Id: XM_039097752   ⟹   XP_038953680
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21935,248,433 - 35,286,671 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100895   ⟸   NM_001107425
- UniProtKB: D3ZGB1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_003751920   ⟸   XM_003751872
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006255618   ⟸   XM_006255556
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006255617   ⟸   XM_006255555
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_008770725   ⟸   XM_008772503
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008770727   ⟸   XM_008772505
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017456780   ⟸   XM_017601291
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000071907   ⟸   ENSRNOT00000077960
RefSeq Acc Id: ENSRNOP00000017005   ⟸   ENSRNOT00000017005
RefSeq Acc Id: XP_038953675   ⟸   XM_039097747
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953677   ⟸   XM_039097749
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038953678   ⟸   XM_039097750
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038953676   ⟸   XM_039097748
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038953679   ⟸   XM_039097751
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038953680   ⟸   XM_039097752
- Peptide Label: isoform X7
RefSeq Acc Id: ENSRNOP00000083454   ⟸   ENSRNOT00000094607
RefSeq Acc Id: ENSRNOP00000097702   ⟸   ENSRNOT00000102316
Protein Domains
RHD

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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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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)
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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)
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)
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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)
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)
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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)
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)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309142 AgrOrtholog
Ensembl Genes ENSRNOG00000011879 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017005 UniProtKB/Swiss-Prot
  ENSRNOP00000071907 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017005 UniProtKB/Swiss-Prot
  ENSRNOT00000077960 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.340 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_E-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IPT_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NFAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NFAT5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHD_dimer UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHD_DNA_bind_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHD_DNA_bind_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:307820 UniProtKB/Swiss-Prot
NCBI Gene 307820 ENTREZGENE
PANTHER PTHR12533 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12533:SF10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam RHD_dimer UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHD_DNA_bind UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nfat5 PhenoGen
PRINTS NUCFACTORATC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE REL_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49417 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81296 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K1M9_RAT UniProtKB/TrEMBL
  D3ZGB1 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-21 Nfat5  nuclear factor of activated T-cells 5  Nfat5  nuclear factor of activated T-cells 5, tonicity-responsive  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-22 Nfat5  nuclear factor of activated T-cells 5, tonicity-responsive  Nfat5  nuclear factor of activated T-cells 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Nfat5  nuclear factor of activated T-cells 5   Nfat5_predicted  nuclear factor of activated T-cells 5 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Nfat5_predicted  nuclear factor of activated T-cells 5 (predicted)      Symbol and Name status set to approved 70820 APPROVED