Nfatc3 (nuclear factor of activated T-cells 3) - Rat Genome Database

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Gene: Nfatc3 (nuclear factor of activated T-cells 3) Rattus norvegicus
Analyze
Symbol: Nfatc3
Name: nuclear factor of activated T-cells 3
RGD ID: 1308692
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Involved in positive regulation of transcription, DNA-templated. Located in cytosol and nucleus. Orthologous to human NFATC3 (nuclear factor of activated T cells 3); PARTICIPATES IN endothelin signaling pathway; calcineurin signaling pathway; nuclear factor of activated T-cells signaling pathway; INTERACTS WITH 1D-myo-inositol 1,4,5-trisphosphate; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC361400; NFAT4; nuclear factor of activated T-cells, cytoplasmic 3; nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3; T cell transcription factor NFAT4
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
mRatBN7.21933,960,643 - 34,035,150 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1933,960,852 - 34,035,150 (+)Ensembl
Rnor_6.01938,039,542 - 38,114,003 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1938,039,564 - 38,114,003 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01948,906,285 - 48,980,756 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41935,907,800 - 35,982,095 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11935,912,754 - 35,984,893 (+)NCBI
Celera1933,388,369 - 33,462,475 (+)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
17alpha-ethynylestradiol  (ISO)
1D-myo-inositol 1,4,5-trisphosphate  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
amphetamine  (EXP)
antimycin A  (ISO)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
ATP  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
BQ 123  (ISO)
Calcimycin  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (EXP,ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenziodolium  (EXP)
dibutyl phthalate  (EXP)
dichloromethane  (EXP)
diethylstilbestrol  (ISO)
doxorubicin  (EXP)
ethanol  (ISO)
ethylbenzene  (EXP)
fenpyroximate  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
harmine  (ISO)
heparin  (EXP)
hydrogen peroxide  (EXP)
ionomycin  (EXP,ISO)
lithium chloride  (ISO)
methamphetamine  (EXP)
methotrexate  (ISO)
N-acetyl-L-cysteine  (ISO)
Nonylphenol  (ISO)
ozone  (ISO)
phenylephrine  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
piroxicam  (ISO)
platycodin D  (EXP)
rimonabant  (ISO)
SCH 23390  (EXP)
simvastatin  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
tacrolimus hydrate  (ISO)
tebufenpyrad  (ISO)
thapsigargin  (ISO)
trichloroethene  (EXP)
troglitazone  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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

References

Additional References at PubMed
PMID:7650004   PMID:9017603   PMID:9768749   PMID:10755616   PMID:11254352   PMID:11439183   PMID:12091710   PMID:12370307   PMID:12671993   PMID:12750314   PMID:14517551   PMID:15173172  
PMID:15322114   PMID:15537643   PMID:15826947   PMID:16260608   PMID:16998587   PMID:17229811   PMID:17403661   PMID:17430895   PMID:17881610   PMID:18398669   PMID:18676376   PMID:18815128  
PMID:18978355   PMID:19179536   PMID:19443652   PMID:19538478   PMID:19574461   PMID:20177053   PMID:20530871   PMID:21514407   PMID:22977251   PMID:23206701   PMID:23219532   PMID:23255067  
PMID:23289723   PMID:23543060   PMID:23853098   PMID:24291639   PMID:24301466   PMID:24389074   PMID:24392954   PMID:24853029   PMID:25231981   PMID:28402855   PMID:28992110   PMID:30299584  
PMID:30318928   PMID:30980393   PMID:31091162   PMID:33495839  


Genomics

Comparative Map Data
Nfatc3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21933,960,643 - 34,035,150 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1933,960,852 - 34,035,150 (+)Ensembl
Rnor_6.01938,039,542 - 38,114,003 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1938,039,564 - 38,114,003 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01948,906,285 - 48,980,756 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41935,907,800 - 35,982,095 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11935,912,754 - 35,984,893 (+)NCBI
Celera1933,388,369 - 33,462,475 (+)NCBICelera
Cytogenetic Map19q12NCBI
NFATC3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1668,084,751 - 68,229,259 (+)EnsemblGRCh38hg38GRCh38
GRCh381668,085,370 - 68,229,259 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371668,119,273 - 68,263,162 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361666,676,876 - 66,818,338 (+)NCBINCBI36hg18NCBI36
Celera1652,627,801 - 52,769,327 (+)NCBI
Cytogenetic Map16q22.1NCBI
HuRef1653,992,420 - 54,136,266 (+)NCBIHuRef
CHM1_11669,527,224 - 69,671,199 (+)NCBICHM1_1
Nfatc3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398106,785,450 - 106,857,169 (+)NCBIGRCm39mm39
GRCm39 Ensembl8106,785,472 - 106,857,169 (+)Ensembl
GRCm388106,058,818 - 106,130,537 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8106,058,840 - 106,130,537 (+)EnsemblGRCm38mm10GRCm38
MGSCv378108,583,503 - 108,654,437 (+)NCBIGRCm37mm9NCBIm37
MGSCv368108,949,013 - 109,017,574 (+)NCBImm8
Celera8110,287,705 - 110,358,321 (+)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.08NCBI
Nfatc3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554848,436,330 - 8,526,680 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554848,433,765 - 8,558,005 (-)NCBIChiLan1.0ChiLan1.0
NFATC3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11667,850,860 - 67,998,381 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1667,888,806 - 67,996,274 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01648,456,144 - 48,603,306 (+)NCBIMhudiblu_PPA_v0panPan3
NFATC3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1581,294,656 - 81,434,256 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl581,296,214 - 81,434,250 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha581,284,804 - 81,424,209 (-)NCBI
ROS_Cfam_1.0581,729,667 - 81,869,214 (-)NCBI
UMICH_Zoey_3.1581,556,378 - 81,695,850 (-)NCBI
UNSW_CanFamBas_1.0581,238,820 - 81,378,048 (-)NCBI
UU_Cfam_GSD_1.0581,880,342 - 82,019,645 (-)NCBI
Nfatc3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934941,031,813 - 41,126,709 (-)NCBI
SpeTri2.0NW_00493647518,462,424 - 18,557,832 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NFATC3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl628,617,445 - 28,872,058 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1628,666,458 - 28,806,432 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2625,836,379 - 25,876,996 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NFATC3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1559,193,139 - 59,346,361 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604721,929,743 - 22,082,004 (-)NCBIVero_WHO_p1.0
Nfatc3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474618,083,051 - 18,210,399 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D8Ertd281e  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21934,034,784 - 34,035,033 (+)MAPPERmRatBN7.2
Rnor_6.01938,113,638 - 38,113,886NCBIRnor6.0
Rnor_5.01948,980,391 - 48,980,639UniSTSRnor5.0
RGSC_v3.41935,981,730 - 35,981,978UniSTSRGSC3.4
Celera1933,462,110 - 33,462,358UniSTS
Cytogenetic Map19q12UniSTS
RH144691  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21933,974,679 - 33,974,832 (+)MAPPERmRatBN7.2
Rnor_6.01938,053,553 - 38,053,705NCBIRnor6.0
Rnor_5.01948,920,298 - 48,920,450UniSTSRnor5.0
RGSC_v3.41935,921,624 - 35,921,776UniSTSRGSC3.4
Celera1933,402,194 - 33,402,346UniSTS
RH 3.4 Map19293.7UniSTS
Cytogenetic Map19q12UniSTS
BI280983  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21934,035,090 - 34,035,243 (+)MAPPERmRatBN7.2
Rnor_6.01938,113,944 - 38,114,096NCBIRnor6.0
Rnor_5.01948,980,697 - 48,980,849UniSTSRnor5.0
RGSC_v3.41935,982,036 - 35,982,188UniSTSRGSC3.4
Celera1933,462,416 - 33,462,568UniSTS
RH 3.4 Map19293.9UniSTS
Cytogenetic Map19q12UniSTS
AA850397  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21934,034,746 - 34,034,984 (+)MAPPERmRatBN7.2
Rnor_6.01938,113,600 - 38,113,837NCBIRnor6.0
Rnor_5.01948,980,353 - 48,980,590UniSTSRnor5.0
RGSC_v3.41935,981,692 - 35,981,929UniSTSRGSC3.4
Celera1933,462,072 - 33,462,309UniSTS
RH 3.4 Map19294.8UniSTS
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
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
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 glucose level (CMO:0000543)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1180
Count of miRNA genes:342
Interacting mature miRNAs:453
Transcripts:ENSRNOT00000025402
Prediction methods:Microtar, Miranda
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 36 43 27 19 27 8 11 43 35 37 11 8
Low 7 14 14 14 31 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108447 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097847 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097848 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097851 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097852 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039097855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC128800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231500 (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: ENSRNOT00000087491   ⟹   ENSRNOP00000068890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,960,852 - 34,033,226 (+)Ensembl
Rnor_6.0 Ensembl1938,039,564 - 38,111,659 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089783   ⟹   ENSRNOP00000069756
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,960,852 - 34,035,150 (+)Ensembl
Rnor_6.0 Ensembl1938,039,729 - 38,114,003 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105048   ⟹   ENSRNOP00000090103
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1933,960,852 - 34,033,226 (+)Ensembl
RefSeq Acc Id: NM_001108447   ⟹   NP_001101917
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,852 - 34,035,150 (+)NCBI
Rnor_6.01938,039,729 - 38,114,003 (+)NCBI
Rnor_5.01948,906,285 - 48,980,756 (+)NCBI
RGSC_v3.41935,907,800 - 35,982,095 (+)RGD
Celera1933,388,369 - 33,462,475 (+)RGD
Sequence:
RefSeq Acc Id: XM_039097841   ⟹   XP_038953769
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,644 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097842   ⟹   XP_038953770
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,645 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097843   ⟹   XP_038953771
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,644 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097844   ⟹   XP_038953772
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,644 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097845   ⟹   XP_038953773
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,646 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097846   ⟹   XP_038953774
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,646 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097847   ⟹   XP_038953775
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,645 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097848   ⟹   XP_038953776
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,645 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097850   ⟹   XP_038953778
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,645 - 34,031,360 (+)NCBI
RefSeq Acc Id: XM_039097851   ⟹   XP_038953779
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,645 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097852   ⟹   XP_038953780
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,645 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097853   ⟹   XP_038953781
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,646 - 34,011,638 (+)NCBI
RefSeq Acc Id: XM_039097854   ⟹   XP_038953782
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,643 - 34,035,145 (+)NCBI
RefSeq Acc Id: XM_039097855   ⟹   XP_038953783
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21933,960,646 - 34,011,652 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101917   ⟸   NM_001108447
- UniProtKB: D3ZU59 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068890   ⟸   ENSRNOT00000087491
RefSeq Acc Id: ENSRNOP00000069756   ⟸   ENSRNOT00000089783
RefSeq Acc Id: XP_038953782   ⟸   XM_039097854
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038953769   ⟸   XM_039097841
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953771   ⟸   XM_039097843
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038953772   ⟸   XM_039097844
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038953776   ⟸   XM_039097848
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038953775   ⟸   XM_039097847
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038953780   ⟸   XM_039097852
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038953770   ⟸   XM_039097842
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953779   ⟸   XM_039097851
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038953778   ⟸   XM_039097850
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038953773   ⟸   XM_039097845
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038953774   ⟸   XM_039097846
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038953783   ⟸   XM_039097855
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038953781   ⟸   XM_039097853
- Peptide Label: isoform X11
RefSeq Acc Id: ENSRNOP00000090103   ⟸   ENSRNOT00000105048
Protein Domains
RHD

Transcriptome

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

Promoters
RGD ID:13701111
Promoter ID:EPDNEW_R11625
Type:multiple initiation site
Name:Nfatc3_2
Description:nuclear factor of activated T-cells 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11626  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01938,039,512 - 38,039,572EPDNEW
RGD ID:13701104
Promoter ID:EPDNEW_R11626
Type:multiple initiation site
Name:Nfatc3_1
Description:nuclear factor of activated T-cells 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11625  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01938,039,706 - 38,039,766EPDNEW

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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308692 AgrOrtholog
Ensembl Genes ENSRNOG00000054264 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068890 UniProtKB/TrEMBL
  ENSRNOP00000069756 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000087491 UniProtKB/TrEMBL
  ENSRNOT00000089783 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
  2.60.40.340 UniProtKB/TrEMBL
InterPro Ig-like_fold UniProtKB/TrEMBL
  Ig_E-set UniProtKB/TrEMBL
  IPT_TIG_rcpt UniProtKB/TrEMBL
  NFAT UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/TrEMBL
  RHD UniProtKB/TrEMBL
  RHD_dimer UniProtKB/TrEMBL
  RHD_DNA_bind_dom_sf UniProtKB/TrEMBL
KEGG Report rno:361400 UniProtKB/TrEMBL
NCBI Gene 361400 ENTREZGENE
PANTHER NFAT UniProtKB/TrEMBL
Pfam RHD UniProtKB/TrEMBL
  RHD_dimer UniProtKB/TrEMBL
PhenoGen Nfatc3 PhenoGen
PRINTS NUCFACTORATC UniProtKB/TrEMBL
PROSITE REL_2 UniProtKB/TrEMBL
SMART IPT UniProtKB/TrEMBL
Superfamily-SCOP Ig_E-set UniProtKB/TrEMBL
  P53_like_DNA_bnd UniProtKB/TrEMBL
UniProt A0A0G2JTY4_RAT UniProtKB/TrEMBL
  D3ZU59 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Nfatc3  nuclear factor of activated T-cells 3  Nfatc3  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Nfatc3  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3   Nfatc3_predicted  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Nfatc3_predicted  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED