Nfatc1 (nuclear factor of activated T-cells 1) - Rat Genome Database

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Gene: Nfatc1 (nuclear factor of activated T-cells 1) Rattus norvegicus
Analyze
Symbol: Nfatc1
Name: nuclear factor of activated T-cells 1
RGD ID: 2319357
Description: Exhibits RNA polymerase II transcription coactivator binding activity and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Localizes to nucleus. Orthologous to human NFATC1 (nuclear factor of activated T cells 1); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; ATP; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC100361818; nuclear factor of activated T-cells, cytoplasmic 1; nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21874,046,421 - 74,156,041 (-)NCBI
Rnor_6.0 Ensembl1877,203,525 - 77,322,690 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01877,203,517 - 77,322,690 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01876,309,900 - 76,426,095 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41877,498,654 - 77,581,231 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1872,704,426 - 72,813,069 (-)NCBICelera
Cytogenetic Map18q12.3NCBI
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)
1,2-dimethylhydrazine  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-aminopurine  (ISO)
2-tert-butylhydroquinone  (ISO)
3'-O-(4-Benzoyl)benzoyl ATP  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-amino-5-chloro-N-[1-[3-(4-fluorophenoxy)propyl]-3-methoxy-4-piperidinyl]-2-methoxybenzamide  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
8-bromo-3',5'-cyclic GMP  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
ATP  (EXP,ISO)
atrazine  (EXP)
azetidine  (ISO)
benzamide  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
cadmium atom  (ISO)
Calcimycin  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
chlorpromazine  (ISO)
choline  (ISO)
chromium(3+) trichloride  (ISO)
chrysene  (ISO)
cisapride  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
CU-O LINKAGE  (ISO)
cyclosporin A  (EXP,ISO)
decabromodiphenyl ether  (EXP)
deoxynivalenol  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ellagic acid  (ISO)
entinostat  (ISO)
ethanol  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
ginsenoside Rb1  (ISO)
harmine  (ISO)
hydrogen peroxide  (ISO)
hydroxychloroquine  (ISO)
hypoxanthine  (ISO)
ionomycin  (ISO)
isoprenaline  (EXP)
KN-93  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
methapyrilene  (ISO)
methylglyoxal  (ISO)
N-acetyl-L-cysteine  (ISO)
niclosamide  (ISO)
ochratoxin A  (ISO)
oxaliplatin  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phenylephrine  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
platycodin D  (EXP,ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
Ro 41-5253  (ISO)
rotenone  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
tetraphene  (ISO)
thapsigargin  (ISO)
thymol  (ISO)
thymol sulfate(1-)  (ISO)
tofacitinib  (ISO)
topotecan  (EXP)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trimellitic anhydride  (ISO)
triphenylstannane  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
xanthohumol  (ISO)
zinc atom  (ISO)
zinc sulfate  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:7650004   PMID:9515963   PMID:9515964   PMID:10903175   PMID:11782539   PMID:11889139   PMID:12091710   PMID:12370307   PMID:12469121   PMID:12660151   PMID:12808150   PMID:12970181  
PMID:14595020   PMID:14749367   PMID:15058383   PMID:15304486   PMID:15339668   PMID:15850572   PMID:17125834   PMID:17430895   PMID:17442941   PMID:17882263   PMID:17965140   PMID:18243104  
PMID:18408153   PMID:18625840   PMID:18675800   PMID:18978355   PMID:19233265   PMID:19463978   PMID:19561615   PMID:19961855   PMID:21464233   PMID:21701818   PMID:21982707   PMID:22019888  
PMID:22451653   PMID:22688515   PMID:23044922   PMID:23535151   PMID:23853098   PMID:23980096   PMID:23994523   PMID:24039232   PMID:24043548   PMID:24284598   PMID:24301466   PMID:24415751  
PMID:26644563   PMID:27122093   PMID:28478803   PMID:30213522   PMID:31046517   PMID:32372426   PMID:32686149  


Genomics

Comparative Map Data
Nfatc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21874,046,421 - 74,156,041 (-)NCBI
Rnor_6.0 Ensembl1877,203,525 - 77,322,690 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01877,203,517 - 77,322,690 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01876,309,900 - 76,426,095 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41877,498,654 - 77,581,231 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1872,704,426 - 72,813,069 (-)NCBICelera
Cytogenetic Map18q12.3NCBI
NFATC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1879,395,856 - 79,529,325 (+)EnsemblGRCh38hg38GRCh38
GRCh381879,395,930 - 79,529,323 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371877,155,930 - 77,289,323 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361875,256,760 - 75,390,311 (+)NCBINCBI36hg18NCBI36
Build 341875,256,759 - 75,329,165NCBI
Celera1873,929,368 - 74,061,687 (+)NCBI
Cytogenetic Map18q23NCBI
HuRef1873,783,058 - 73,914,637 (+)NCBIHuRef
CHM1_11877,150,992 - 77,284,501 (+)NCBICHM1_1
Nfatc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391880,649,418 - 80,756,286 (-)NCBIGRCm39mm39
GRCm39 Ensembl1880,649,420 - 80,756,286 (-)Ensembl
GRCm381880,606,205 - 80,713,071 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1880,606,205 - 80,713,071 (-)EnsemblGRCm38mm10GRCm38
MGSCv371880,802,944 - 80,909,810 (-)NCBIGRCm37mm9NCBIm37
MGSCv361880,768,264 - 80,875,117 (-)NCBImm8
Celera1881,715,612 - 81,822,471 (-)NCBICelera
Cytogenetic Map18E3NCBI
cM Map1853.66NCBI
Nfatc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540262,558,286 - 62,674,457 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540262,558,392 - 62,674,347 (+)NCBIChiLan1.0ChiLan1.0
NFATC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11876,020,443 - 76,133,790 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1876,017,454 - 76,094,453 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01872,948,067 - 73,083,180 (+)NCBIMhudiblu_PPA_v0panPan3
NFATC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.111,027,021 - 1,121,362 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl11,028,695 - 1,121,588 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha12,030,800 - 2,126,866 (-)NCBI
ROS_Cfam_1.01826,991 - 923,076 (-)NCBI
UMICH_Zoey_3.11879,585 - 975,578 (-)NCBI
UNSW_CanFamBas_1.01825,423 - 922,065 (-)NCBI
UU_Cfam_GSD_1.01996,485 - 1,092,567 (-)NCBI
Nfatc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494415,162,918 - 15,264,081 (-)NCBI
SpeTri2.0NW_004936616484,062 - 584,950 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NFATC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1145,911,045 - 146,017,701 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11145,940,099 - 146,002,897 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21161,528,147 - 161,632,555 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NFATC1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.118690,313 - 815,804 (-)NCBI
ChlSab1.1 Ensembl18689,671 - 811,100 (-)Ensembl
Nfatc1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624806905,487 - 1,022,784 (-)NCBI

Position Markers
D18Rat45  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21874,055,619 - 74,055,742 (+)MAPPER
Rnor_6.01877,212,212 - 77,212,332NCBIRnor6.0
Rnor_5.01876,318,595 - 76,318,715UniSTSRnor5.0
RGSC_v3.41877,510,855 - 77,510,975UniSTSRGSC3.4
RGSC_v3.41877,510,828 - 77,511,190RGDRGSC3.4
RGSC_v3.11877,584,128 - 77,584,248RGD
Celera1872,713,123 - 72,713,243UniSTS
RH 3.4 Map18794.7RGD
RH 3.4 Map18794.7UniSTS
RH 2.0 Map18106.0RGD
SHRSP x BN Map1847.8399RGD
FHH x ACI Map1858.5499RGD
Cytogenetic Map18q12.3UniSTS
RH131617  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21874,088,353 - 74,088,569 (+)MAPPER
Rnor_6.01877,245,143 - 77,245,358NCBIRnor6.0
Rnor_5.01876,351,526 - 76,351,741UniSTSRnor5.0
RGSC_v3.41877,543,588 - 77,543,803UniSTSRGSC3.4
Celera1872,746,026 - 72,746,241UniSTS
RH 3.4 Map18794.7UniSTS
Cytogenetic Map18q12.3UniSTS
RH135219  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21874,047,154 - 74,047,336 (+)MAPPER
Rnor_6.01877,203,748 - 77,203,929NCBIRnor6.0
Rnor_5.01876,310,131 - 76,310,312UniSTSRnor5.0
RGSC_v3.41877,502,389 - 77,502,570UniSTSRGSC3.4
Celera1872,704,657 - 72,704,838UniSTS
RH 3.4 Map18798.2UniSTS
Cytogenetic Map18q12.3UniSTS
RH138517  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21874,145,749 - 74,145,905 (+)MAPPER
Rnor_6.01877,312,412 - 77,312,567NCBIRnor6.0
Rnor_5.01876,415,817 - 76,415,972UniSTSRnor5.0
RGSC_v3.41877,583,577 - 77,583,732UniSTSRGSC3.4
Celera1872,802,791 - 72,802,946UniSTS
RH 3.4 Map18813.4UniSTS
Cytogenetic Map18q12.3UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181569587287080053Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181569587287080053Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)182028575887080053Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260373687074531Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182596102681761656Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183267035287080053Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183270402280696226Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183822191983221919Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184037576985375769Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184500219488201929Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184631947688201929Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184913092088201929Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184913092088201929Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184913092088201929Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185137581688201929Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185137581688201929Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185303349487080053Rat
2301417Bp319Blood pressure QTL 3190.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)185410837579575348Rat
12880368Bw187Body weight QTL 1870.045body mass (VT:0001259)body weight (CMO:0000012)185410837579575348Rat
12904067Cm122Cardiac mass QTL 1220.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)185410837579575348Rat
12904069Cm123Cardiac mass QTL 1230.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)185410837579575348Rat
12904070Cm124Cardiac mass QTL 1240.01heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)185410837579575348Rat
12904071Am18Aortic mass QTL 180.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)185410837579575348Rat
12904073Kidm71Kidney mass QTL 710.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)185410837579575348Rat
1558649Bw58Body weight QTL 583.40.0005body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893359Bw103Body weight QTL 1031.20.12body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893368Bw107Body weight QTL 1070.30.5body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)185819630088201929Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)186190135479948616Rat
2301969Bp324Blood pressure QTL 3244.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186190135479948616Rat
6903356Bp354Blood pressure QTL 3544.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186198564888201929Rat
631675Iddm15Insulin dependent diabetes mellitus QTL 15urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)186280540680696375Rat
61384Bp48Blood pressure QTL 4819.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186280540680696375Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)186300981288201929Rat
634333Pia19Pristane induced arthritis QTL 193.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)187715130183366399Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:42
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000058382
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 6 2 13 3 1 5
Low 1 37 55 41 6 41 8 8 74 35 40 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000058382   ⟹   ENSRNOP00000055183
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1877,203,525 - 77,322,690 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090369   ⟹   ENSRNOP00000070317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1877,250,850 - 77,317,969 (-)Ensembl
RefSeq Acc Id: NM_001244933   ⟹   NP_001231862
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21874,046,924 - 74,156,028 (-)NCBI
Rnor_6.01877,203,517 - 77,322,690 (-)NCBI
Rnor_5.01876,309,900 - 76,426,095 (-)NCBI
Celera1872,704,426 - 72,813,069 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039096523   ⟹   XP_038952451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21874,065,165 - 74,156,041 (-)NCBI
RefSeq Acc Id: XM_039096524   ⟹   XP_038952452
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21874,065,165 - 74,151,348 (-)NCBI
RefSeq Acc Id: XM_039096525   ⟹   XP_038952453
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21874,046,421 - 74,156,040 (-)NCBI
RefSeq Acc Id: XM_039096526   ⟹   XP_038952454
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21874,065,165 - 74,156,041 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001231862   ⟸   NM_001244933
- Sequence:
RefSeq Acc Id: ENSRNOP00000070317   ⟸   ENSRNOT00000090369
RefSeq Acc Id: ENSRNOP00000055183   ⟸   ENSRNOT00000058382
RefSeq Acc Id: XP_038952453   ⟸   XM_039096525
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038952454   ⟸   XM_039096526
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038952451   ⟸   XM_039096523
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038952452   ⟸   XM_039096524
- Peptide Label: isoform X2
Protein Domains
RHD

Transcriptome

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

Promoters
RGD ID:13700899
Promoter ID:EPDNEW_R11413
Type:multiple initiation site
Name:Nfatc1_2
Description:nuclear factor of activated T-cells 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11414  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01877,317,955 - 77,318,015EPDNEW
RGD ID:13700890
Promoter ID:EPDNEW_R11414
Type:multiple initiation site
Name:Nfatc1_1
Description:nuclear factor of activated T-cells 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11413  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01877,322,692 - 77,322,752EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2319357 AgrOrtholog
Ensembl Genes ENSRNOG00000017146 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000055183 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070317 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000058382 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090369 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 UniProtKB/TrEMBL
  NFAT UniProtKB/TrEMBL
  NFAT1 UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/TrEMBL
  RHD_dimer UniProtKB/TrEMBL
  RHD_DNA_bind_dom UniProtKB/TrEMBL
  RHD_DNA_bind_dom_sf UniProtKB/TrEMBL
NCBI Gene 100361818 ENTREZGENE
PANTHER PTHR12533 UniProtKB/TrEMBL
  PTHR12533:SF5 UniProtKB/TrEMBL
Pfam RHD_dimer UniProtKB/TrEMBL
  RHD_DNA_bind UniProtKB/TrEMBL
PhenoGen Nfatc1 PhenoGen
PRINTS NUCFACTORATC UniProtKB/TrEMBL
PROSITE REL_2 UniProtKB/TrEMBL
SMART IPT UniProtKB/TrEMBL
Superfamily-SCOP SSF49417 UniProtKB/TrEMBL
  SSF81296 UniProtKB/TrEMBL
UniProt A0A0G2JXL2_RAT UniProtKB/TrEMBL
  D3ZE20_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Nfatc1  nuclear factor of activated T-cells 1  Nfatc1  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-12-13 Nfatc1  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1  LOC100361818  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100361818  nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 1      Symbol and Name status set to provisional 70820 PROVISIONAL