Camk4 (calcium/calmodulin-dependent protein kinase IV) - Rat Genome Database

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Gene: Camk4 (calcium/calmodulin-dependent protein kinase IV) Rattus norvegicus
Analyze
Symbol: Camk4
Name: calcium/calmodulin-dependent protein kinase IV
RGD ID: 2264
Description: Enables calmodulin-dependent protein kinase activity. Involved in protein phosphorylation. Located in postsynapse. Is active in glutamatergic synapse. Orthologous to human CAMK4 (calcium/calmodulin dependent protein kinase IV); PARTICIPATES IN calcium/calcium-mediated signaling pathway; long term potentiation; neurotrophic factor signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: calcium/calmodulin-dependent protein kinase type IV; Calmodulin-dependent protein kinase IV; calspermin; CAM kinase-GR; caMK IV; Ccdpk; RATCCDPK
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
mRatBN7.21824,582,988 - 24,811,918 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1824,585,269 - 24,802,487 (+)Ensembl
Rnor_6.01825,746,878 - 25,975,962 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1825,749,098 - 25,965,957 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01825,461,935 - 25,690,666 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41825,404,123 - 25,625,785 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11825,434,889 - 25,652,443 (+)NCBI
Celera1824,329,977 - 24,549,475 (+)NCBICelera
Cytogenetic Map18p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,4,5-Tetrachloro-4'-biphenylol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (EXP)
3,5-dichloro-N-[[(2S)-1-ethyl-2-pyrrolidinyl]methyl]-2-hydroxy-6-methoxybenzamide  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
9-cis-retinoic acid  (EXP)
acrolein  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP)
buta-1,3-diene  (ISO)
Butylbenzyl phthalate  (EXP)
C60 fullerene  (EXP)
cadmium atom  (ISO)
casticin  (ISO)
clozapine  (EXP)
cocaine  (ISO)
cyclosporin A  (EXP)
dexamethasone  (EXP)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
diethyl phthalate  (EXP)
diethylstilbestrol  (ISO)
diisobutyl phthalate  (EXP)
diisononyl phthalate  (EXP)
dizocilpine maleate  (EXP)
dorsomorphin  (ISO)
ethanol  (ISO)
fenamidone  (ISO)
fluoxetine  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gentamycin  (EXP)
glycidol  (EXP)
haloperidol  (EXP)
hydrogen peroxide  (ISO)
kainic acid  (ISO)
KN-93  (EXP)
lanthanum atom  (EXP)
lithium atom  (EXP)
lithium hydride  (EXP)
methapyrilene  (ISO)
methylseleninic acid  (ISO)
N-Nitrosopyrrolidine  (ISO)
Nicardipine  (EXP)
nickel atom  (ISO)
nicotine  (ISO)
nitrofen  (EXP)
O-methyleugenol  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
PCB138  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
resveratrol  (EXP)
risperidone  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
testosterone  (EXP)
tetrodotoxin  (EXP)
thapsigargin  (EXP)
titanium dioxide  (ISO)
toluene  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tunicamycin  (ISO)
valproic acid  (EXP,ISO)
verapamil  (EXP)
vorinostat  (ISO)
zoledronic acid  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1646483   PMID:1649385   PMID:2914893   PMID:7592527   PMID:7615569   PMID:7961813   PMID:8065343   PMID:8107230   PMID:8299971   PMID:8621702   PMID:8631893   PMID:8636117  
PMID:8855261   PMID:9596578   PMID:9822657   PMID:10336483   PMID:10964952   PMID:11081517   PMID:12086646   PMID:12130539   PMID:12403833   PMID:12477932   PMID:14701808   PMID:15262966  
PMID:15308608   PMID:15537635   PMID:15719015   PMID:15748849   PMID:15919723   PMID:16822951   PMID:16923323   PMID:17273866   PMID:17909078   PMID:18029144   PMID:18381242   PMID:18559891  
PMID:18829949   PMID:19056867   PMID:19292454   PMID:19506079   PMID:19711354   PMID:19874424   PMID:20056827   PMID:20423744   PMID:20799369   PMID:21762679   PMID:21989476   PMID:23680840  
PMID:23817991   PMID:27216039   PMID:28592691   PMID:30053369  


Genomics

Comparative Map Data
Camk4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21824,582,988 - 24,811,918 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1824,585,269 - 24,802,487 (+)Ensembl
Rnor_6.01825,746,878 - 25,975,962 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1825,749,098 - 25,965,957 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01825,461,935 - 25,690,666 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41825,404,123 - 25,625,785 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11825,434,889 - 25,652,443 (+)NCBI
Celera1824,329,977 - 24,549,475 (+)NCBICelera
Cytogenetic Map18p12NCBI
CAMK4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5111,223,653 - 111,494,886 (+)EnsemblGRCh38hg38GRCh38
GRCh385111,223,583 - 111,498,503 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh375110,559,281 - 110,830,584 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365110,587,981 - 110,848,648 (+)NCBINCBI36hg18NCBI36
Build 345110,587,980 - 110,848,645NCBI
Celera5106,506,012 - 106,766,350 (+)NCBI
Cytogenetic Map5q22.1NCBI
HuRef5105,739,000 - 105,999,500 (+)NCBIHuRef
CHM1_15109,993,303 - 110,254,043 (+)NCBICHM1_1
Camk4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391833,067,995 - 33,328,820 (+)NCBIGRCm39mm39
GRCm39 Ensembl1833,067,984 - 33,324,281 (+)Ensembl
GRCm381832,934,941 - 33,195,767 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1832,934,931 - 33,191,228 (+)EnsemblGRCm38mm10GRCm38
MGSCv371833,098,695 - 33,355,421 (+)NCBIGRCm37mm9NCBIm37
MGSCv361833,082,366 - 33,311,737 (+)NCBImm8
Celera1833,410,258 - 33,643,822 (+)NCBICelera
Cytogenetic Map18B1NCBI
cM Map1818.15NCBI
Camk4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554183,664,479 - 3,887,175 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554183,664,352 - 3,887,175 (-)NCBIChiLan1.0ChiLan1.0
CAMK4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15112,393,674 - 112,657,593 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5112,393,211 - 112,647,203 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05106,590,803 - 106,855,592 (+)NCBIMhudiblu_PPA_v0panPan3
CAMK4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.131,174,975 - 1,369,640 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl31,180,401 - 1,369,803 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha32,578,244 - 2,850,336 (-)NCBI
ROS_Cfam_1.031,020,594 - 1,293,824 (-)NCBI
UMICH_Zoey_3.131,010,019 - 1,282,970 (-)NCBI
UNSW_CanFamBas_1.031,006,461 - 1,284,714 (-)NCBI
UU_Cfam_GSD_1.031,170,193 - 1,449,448 (-)NCBI
Camk4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213155,752,531 - 155,995,704 (-)NCBI
SpeTri2.0NW_0049365315,615,442 - 5,858,968 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CAMK4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2115,910,423 - 116,229,758 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12115,910,403 - 116,234,835 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22120,705,517 - 120,814,660 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CAMK4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12314,563,476 - 14,828,128 (+)NCBI
ChlSab1.1 Ensembl2314,563,034 - 14,826,821 (+)Ensembl
Vero_WHO_p1.0NW_02366603463,642,472 - 63,910,617 (-)NCBI
Camk4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474329,045,998 - 29,276,801 (+)NCBI

Position Markers
D18Wox14  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,586,534 - 24,586,682 (+)MAPPERmRatBN7.2
Rnor_6.01825,750,364 - 25,750,511NCBIRnor6.0
Rnor_5.01825,465,421 - 25,465,568UniSTSRnor5.0
RGSC_v3.41825,407,670 - 25,407,817UniSTSRGSC3.4
Celera1824,333,528 - 24,333,675UniSTS
Cytogenetic Map18p12UniSTS
D18Mgh9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,796,977 - 24,797,117 (+)MAPPERmRatBN7.2
Rnor_6.01825,961,026 - 25,961,165NCBIRnor6.0
Rnor_5.01825,675,732 - 25,675,871UniSTSRnor5.0
RGSC_v3.41825,620,884 - 25,621,024RGDRGSC3.4
RGSC_v3.41825,620,885 - 25,621,024UniSTSRGSC3.4
RGSC_v3.11825,647,530 - 25,647,670RGD
Celera1824,544,575 - 24,544,714UniSTS
RH 3.4 Map18338.4UniSTS
RH 3.4 Map18338.4RGD
RH 2.0 Map18571.8RGD
Cytogenetic Map18p12UniSTS
D18Rat66  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,768,796 - 24,769,009 (+)MAPPERmRatBN7.2
Rnor_6.01825,932,986 - 25,933,198NCBIRnor6.0
Rnor_5.01825,647,692 - 25,647,904UniSTSRnor5.0
RGSC_v3.41825,592,835 - 25,593,048RGDRGSC3.4
RGSC_v3.41825,592,836 - 25,593,048UniSTSRGSC3.4
RGSC_v3.11825,619,401 - 25,619,957RGD
Celera1824,516,452 - 24,516,664UniSTS
SHRSP x BN Map1811.4999UniSTS
SHRSP x BN Map1811.4999RGD
FHH x ACI Map1814.96RGD
Cytogenetic Map18p12UniSTS
D18Rat132  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,732,271 - 24,732,519 (+)MAPPERmRatBN7.2
Rnor_6.01825,896,100 - 25,896,347NCBIRnor6.0
Rnor_5.01825,610,723 - 25,610,970UniSTSRnor5.0
RGSC_v3.41825,556,340 - 25,556,586RGDRGSC3.4
RGSC_v3.41825,556,341 - 25,556,586UniSTSRGSC3.4
RGSC_v3.11825,582,986 - 25,583,232RGD
Celera1824,479,152 - 24,479,397UniSTS
SHRSP x BN Map1811.4999UniSTS
SHRSP x BN Map1811.4999RGD
FHH x ACI Map1814.96RGD
Cytogenetic Map18p12UniSTS
D18Got37  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,630,802 - 24,631,052 (+)MAPPERmRatBN7.2
Rnor_6.01825,794,805 - 25,795,052NCBIRnor6.0
Rnor_5.01825,509,862 - 25,510,109UniSTSRnor5.0
RGSC_v3.41825,451,941 - 25,452,189RGDRGSC3.4
RGSC_v3.41825,451,942 - 25,452,189UniSTSRGSC3.4
RGSC_v3.11825,478,588 - 25,478,835RGD
Celera1824,377,826 - 24,378,073UniSTS
RH 3.4 Map18324.4UniSTS
RH 3.4 Map18324.4RGD
RH 2.0 Map18581.7RGD
Cytogenetic Map18p12UniSTS
D18Chm2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,735,261 - 24,735,488 (+)MAPPERmRatBN7.2
Rnor_6.01825,899,090 - 25,899,314NCBIRnor6.0
Rnor_5.01825,613,713 - 25,613,937UniSTSRnor5.0
RGSC_v3.41825,559,329 - 25,559,553UniSTSRGSC3.4
Celera1824,482,140 - 24,482,364UniSTS
Cytogenetic Map18p12UniSTS
BF400657  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,619,029 - 24,619,134 (+)MAPPERmRatBN7.2
Rnor_6.01825,783,028 - 25,783,132NCBIRnor6.0
Rnor_5.01825,498,085 - 25,498,189UniSTSRnor5.0
RGSC_v3.41825,440,165 - 25,440,269UniSTSRGSC3.4
Celera1824,366,044 - 24,366,148UniSTS
RH 3.4 Map18333.0UniSTS
Cytogenetic Map18p12UniSTS
BE107932  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,682,558 - 24,682,711 (+)MAPPERmRatBN7.2
Rnor_6.01825,845,932 - 25,846,084NCBIRnor6.0
Rnor_5.01825,560,989 - 25,561,141UniSTSRnor5.0
RGSC_v3.41825,505,193 - 25,505,345UniSTSRGSC3.4
Celera1824,429,493 - 24,429,645UniSTS
RH 3.4 Map18334.6UniSTS
Cytogenetic Map18p12UniSTS
AU047213  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,621,756 - 24,621,933 (+)MAPPERmRatBN7.2
Rnor_6.01825,785,755 - 25,785,931NCBIRnor6.0
Rnor_5.01825,500,812 - 25,500,988UniSTSRnor5.0
RGSC_v3.41825,442,892 - 25,443,068UniSTSRGSC3.4
Celera1824,368,771 - 24,368,947UniSTS
Cytogenetic Map18p12UniSTS
RH137597  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,792,955 - 24,793,148 (+)MAPPERmRatBN7.2
Rnor_6.01825,957,005 - 25,957,197NCBIRnor6.0
Rnor_5.01825,671,711 - 25,671,903UniSTSRnor5.0
RGSC_v3.41825,616,864 - 25,617,056UniSTSRGSC3.4
Celera1824,540,554 - 24,540,746UniSTS
Cytogenetic Map18p12UniSTS
RH138191  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,801,575 - 24,801,824 (+)MAPPERmRatBN7.2
Rnor_6.01825,965,623 - 25,965,871NCBIRnor6.0
Rnor_5.01825,680,329 - 25,680,577UniSTSRnor5.0
RGSC_v3.41825,625,482 - 25,625,730UniSTSRGSC3.4
Celera1824,549,172 - 24,549,420UniSTS
RH 3.4 Map18336.1UniSTS
Cytogenetic Map18p12UniSTS
BE119628  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,620,602 - 24,620,776 (+)MAPPERmRatBN7.2
Rnor_6.01825,784,601 - 25,784,774NCBIRnor6.0
Rnor_5.01825,499,658 - 25,499,831UniSTSRnor5.0
RGSC_v3.41825,441,738 - 25,441,911UniSTSRGSC3.4
Celera1824,367,617 - 24,367,790UniSTS
RH 3.4 Map18316.2UniSTS
Cytogenetic Map18p12UniSTS
STS-Z40708  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21824,732,046 - 24,733,183 (+)MAPPERmRatBN7.2
Rnor_6.01825,895,875 - 25,897,011NCBIRnor6.0
Rnor_5.01825,610,498 - 25,611,634UniSTSRnor5.0
RGSC_v3.41825,556,116 - 25,557,250UniSTSRGSC3.4
Celera1824,478,927 - 24,480,061UniSTS
Cytogenetic Map18p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
61382Bp46Blood pressure QTL 4618.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194179131393320Rat
631264Scl22Serum cholesterol level QTL 226.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)181194179131393320Rat
12904690Cm129Cardiac mass QTL 1290.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)181194427326548295Rat
12904689Cm128Cardiac mass QTL 1280.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)181194427326548295Rat
12904693Am20Aortic mass QTL 200.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)181194427326548295Rat
12904695Kidm73Kidney mass QTL 730.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)181194427326548295Rat
12904691Cm130Cardiac mass QTL 1300.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)181194427326548295Rat
12904680Bw189Body weight QTL 1890.019body mass (VT:0001259)body weight (CMO:0000012)181194427326548295Rat
2301410Bp317Blood pressure QTL 3170.004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194427326548295Rat
1331781Scl28Serum cholesterol level QTL 283.995blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)181194429924797117Rat
1331766Bp236Blood pressure QTL 2363.022arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181194429931359530Rat
61375Bp41Blood pressure QTL 412.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)181194429941122201Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194429952293055Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181194429959330563Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181194454459796478Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181495133759951337Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181800759963571040Rat
1331735Rf44Renal function QTL 442.981total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)181823456431359530Rat
1331775Bp235Blood pressure QTL 2353.201arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)181823456431359530Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)181927890183218561Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182137289383213037Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)182206624252293055Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182479697779788953Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:134
Count of miRNA genes:100
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000027771
Prediction methods:Microtar, 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 8 13 48 7
Low 3 24 9 1 6 1 4 4 24 6 22 11 4
Below cutoff 19 14 14 14 4 7 2 29 11 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027771   ⟹   ENSRNOP00000027771
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1824,585,269 - 24,801,869 (+)Ensembl
Rnor_6.0 Ensembl1825,749,098 - 25,965,916 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078822   ⟹   ENSRNOP00000072926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1824,587,103 - 24,802,487 (+)Ensembl
Rnor_6.0 Ensembl1825,962,855 - 25,965,957 (+)Ensembl
RefSeq Acc Id: NM_012727   ⟹   NP_036859
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21824,582,988 - 24,801,879 (+)NCBI
Rnor_6.01825,746,878 - 25,965,926 (+)NCBI
Rnor_5.01825,461,935 - 25,690,666 (+)NCBI
RGSC_v3.41825,404,123 - 25,625,785 (+)RGD
Celera1824,329,977 - 24,549,475 (+)RGD
Sequence:
RefSeq Acc Id: XM_006254523   ⟹   XP_006254585
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21824,587,187 - 24,811,918 (+)NCBI
Rnor_6.01825,750,924 - 25,975,962 (+)NCBI
Rnor_5.01825,461,935 - 25,690,666 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600851   ⟹   XP_017456340
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21824,584,996 - 24,811,918 (+)NCBI
Rnor_6.01825,749,092 - 25,975,962 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039096574   ⟹   XP_038952502
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21824,764,902 - 24,811,918 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036859   ⟸   NM_012727
- UniProtKB: P13234 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006254585   ⟸   XM_006254523
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017456340   ⟸   XM_017600851
- Peptide Label: isoform X1
- UniProtKB: P13234 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000072926   ⟸   ENSRNOT00000078822
RefSeq Acc Id: ENSRNOP00000027771   ⟸   ENSRNOT00000027771
RefSeq Acc Id: XP_038952502   ⟸   XM_039096574
- Peptide Label: isoform X2
Protein Domains
Protein kinase

Transcriptome

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

Promoters
RGD ID:13700694
Promoter ID:EPDNEW_R11212
Type:multiple initiation site
Name:Camk4_1
Description:calcium/calmodulin-dependent protein kinase IV
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01825,962,844 - 25,962,904EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: 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)
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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BUF/N (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (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: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/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
F344/NRrrc (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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/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)
FHH/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
FHL/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)
FHL/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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (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)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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: 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)
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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2264 AgrOrtholog
Ensembl Genes ENSRNOG00000020478 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000027771 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000072926 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000027771 UniProtKB/Swiss-Prot
  ENSRNOT00000078822 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7455982 IMAGE-MGC_LOAD
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:25050 UniProtKB/Swiss-Prot
MGC_CLONE MGC:156504 IMAGE-MGC_LOAD
NCBI Gene 25050 ENTREZGENE
Pfam Pkinase UniProtKB/Swiss-Prot
PhenoGen Camk4 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot
SMART S_TKc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot
TIGR TC206301
UniProt KCC4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A1A5L5 UniProtKB/Swiss-Prot
  Q63892 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-11-06 Camk4  calcium/calmodulin-dependent protein kinase IV    Calmodulin-dependent protein kinase IV  Name updated 625702 APPROVED
2002-06-10 Camk4  Calmodulin-dependent protein kinase IV      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression is enriched in the granule cells of the cerebellum 634691
gene_expression expressed in T-lymphocytes, granule cells of the cerebellum and meiotic male germ cells 634692
gene_function monomeric multifunctional enzyme 634692
gene_function phosphorylates synapsin I 634691
gene_process involved in neuronal Ca2+ signaling 634691
gene_transcript alternative splicing of the gene appears to produce calspermin protein transcript 634692
gene_transcript alternative splicing of the gene appears to produce calspermin protein transcript 1299832