Camk1d (calcium/calmodulin-dependent protein kinase ID) - Rat Genome Database

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Gene: Camk1d (calcium/calmodulin-dependent protein kinase ID) Rattus norvegicus
Analyze
Symbol: Camk1d
Name: calcium/calmodulin-dependent protein kinase ID
RGD ID: 1560691
Description: Predicted to have calmodulin binding activity and calmodulin-dependent protein kinase activity. Predicted to be involved in several processes, including positive regulation of CREB transcription factor activity; regulation of apoptotic process; and regulation of neuron projection development. Predicted to localize to cytoplasm and nucleus. Orthologous to human CAMK1D (calcium/calmodulin dependent protein kinase ID); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: calcium/calmodulin-dependent protein kinase type 1D; hypothetical protein LOC307124; LOC307124; RGD1560691; similar to calcium/calmodulin-dependent protein kinase 1D; uncharacterized protein LOC307124
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
mRatBN7.21772,581,899 - 72,982,704 (+)NCBI
Rnor_6.0 Ensembl1776,532,611 - 76,938,956 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01776,532,611 - 76,938,956 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01778,187,614 - 78,538,315 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01778,552,005 - 78,591,805 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41783,649,720 - 84,061,160 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1772,029,264 - 72,426,573 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
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
(2,4,5-trichlorophenoxy)acetic acid  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (ISO)
avobenzone  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
folic acid  (ISO)
hypochlorous acid  (ISO)
methapyrilene  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
O-methyleugenol  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
rac-lactic acid  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
sodium fluoride  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
trichostatin A  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zoledronic acid  (ISO)

References

Additional References at PubMed
PMID:11050006   PMID:14980499   PMID:15840691   PMID:16324104   PMID:17056143   PMID:18400360  


Genomics

Comparative Map Data
Camk1d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21772,581,899 - 72,982,704 (+)NCBI
Rnor_6.0 Ensembl1776,532,611 - 76,938,956 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01776,532,611 - 76,938,956 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01778,187,614 - 78,538,315 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01778,552,005 - 78,591,805 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41783,649,720 - 84,061,160 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1772,029,264 - 72,426,573 (+)NCBICelera
Cytogenetic Map17q12.3NCBI
CAMK1D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1012,349,547 - 12,835,545 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1012,349,482 - 12,835,545 (+)EnsemblGRCh38hg38GRCh38
GRCh381012,349,514 - 12,835,545 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371012,391,546 - 12,877,545 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361012,431,589 - 12,911,741 (+)NCBINCBI36hg18NCBI36
Celera1012,320,755 - 12,797,502 (+)NCBI
Cytogenetic Map10p13NCBI
HuRef1012,307,786 - 12,784,748 (+)NCBIHuRef
CHM1_11012,391,496 - 12,877,567 (+)NCBICHM1_1
Camk1d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3925,298,268 - 5,719,665 (-)NCBIGRCm39mm39
GRCm39 Ensembl25,298,268 - 5,719,326 (-)Ensembl
GRCm3825,293,457 - 5,714,860 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl25,293,457 - 5,714,515 (-)EnsemblGRCm38mm10GRCm38
MGSCv3725,214,503 - 5,635,710 (-)NCBIGRCm37mm9NCBIm37
MGSCv3625,210,729 - 5,631,936 (-)NCBImm8
Celera25,248,039 - 5,664,845 (-)NCBICelera
Cytogenetic Map2A1NCBI
Camk1d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955462391,235 - 813,598 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955462391,235 - 819,240 (+)NCBIChiLan1.0ChiLan1.0
CAMK1D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11012,471,340 - 12,809,098 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1012,540,854 - 12,808,599 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01012,359,213 - 12,840,464 (+)NCBIMhudiblu_PPA_v0panPan3
CAMK1D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1223,680,395 - 24,113,922 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl223,685,672 - 24,114,084 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha220,698,974 - 21,138,879 (-)NCBI
ROS_Cfam_1.0224,052,518 - 24,484,818 (-)NCBI
UMICH_Zoey_3.1221,178,935 - 21,612,394 (-)NCBI
UNSW_CanFamBas_1.0222,021,253 - 22,454,982 (-)NCBI
UU_Cfam_GSD_1.0222,737,896 - 23,169,796 (-)NCBI
Camk1d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934426,461,700 - 26,858,995 (-)NCBI
SpeTri2.0NW_0049364842,626,909 - 2,768,304 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CAMK1D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1059,205,262 - 59,630,102 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11059,199,541 - 59,630,191 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21064,912,917 - 64,969,603 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CAMK1D
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1912,392,452 - 12,873,294 (+)NCBI
ChlSab1.1 Ensembl912,809,028 - 12,872,778 (+)Ensembl
Camk1d
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248055,047,885 - 5,413,264 (+)NCBI

Position Markers
D17Got92  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,896,398 - 72,896,562 (+)MAPPER
Rnor_6.01776,844,085 - 76,844,246NCBIRnor6.0
Rnor_5.01778,499,779 - 78,499,862NCBIRnor5.0
Rnor_5.01778,499,780 - 78,499,862NCBIRnor5.0
RGSC_v3.41783,975,678 - 83,975,842RGDRGSC3.4
RGSC_v3.41783,975,679 - 83,975,842UniSTSRGSC3.4
RGSC_v3.11783,986,512 - 83,986,675RGD
RH 3.4 Map17723.6RGD
RH 3.4 Map17723.6UniSTS
RH 2.0 Map17620.3RGD
Cytogenetic Map17q12.3UniSTS
BF397554  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,606,474 - 72,606,631 (+)MAPPER
Rnor_6.01776,556,913 - 76,557,069NCBIRnor6.0
Rnor_5.01778,211,870 - 78,212,026UniSTSRnor5.0
RGSC_v3.41783,674,299 - 83,674,455UniSTSRGSC3.4
Celera1772,053,836 - 72,053,992UniSTS
RH 3.4 Map17723.7UniSTS
Cytogenetic Map17q12.3UniSTS
BF402566  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,659,932 - 72,660,031 (+)MAPPER
Rnor_6.01776,609,771 - 76,609,869NCBIRnor6.0
Rnor_5.01778,265,795 - 78,265,893UniSTSRnor5.0
RGSC_v3.41783,731,832 - 83,731,930UniSTSRGSC3.4
Celera1772,106,412 - 72,106,510UniSTS
RH 3.4 Map17728.6UniSTS
Cytogenetic Map17q12.3UniSTS
BI294222  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,841,339 - 72,841,456 (+)MAPPER
Rnor_6.01776,790,178 - 76,790,294NCBIRnor6.0
Rnor_5.01778,445,874 - 78,445,990UniSTSRnor5.0
RGSC_v3.41783,919,602 - 83,919,718UniSTSRGSC3.4
Celera1772,286,411 - 72,286,527UniSTS
RH 3.4 Map17723.7UniSTS
Cytogenetic Map17q12.3UniSTS
BE120058  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,761,508 - 72,761,703 (+)MAPPER
Rnor_6.01776,710,668 - 76,710,862NCBIRnor6.0
Rnor_5.01778,366,671 - 78,366,865UniSTSRnor5.0
RGSC_v3.41783,838,845 - 83,839,039UniSTSRGSC3.4
Celera1772,207,040 - 72,207,234UniSTS
RH 3.4 Map17727.4UniSTS
Cytogenetic Map17q12.3UniSTS
AU047982  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,904,683 - 72,904,846 (+)MAPPER
Rnor_6.01776,861,771 - 76,861,933NCBIRnor6.0
Rnor_5.01778,517,197 - 78,517,359UniSTSRnor5.0
Celera1772,348,125 - 72,348,287UniSTS
Cytogenetic Map17q12.3UniSTS
RH135357  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,682,079 - 72,682,260 (+)MAPPER
Rnor_6.01776,631,910 - 76,632,090NCBIRnor6.0
Rnor_5.01778,287,934 - 78,288,114UniSTSRnor5.0
RGSC_v3.41783,753,971 - 83,754,151UniSTSRGSC3.4
Celera1772,128,533 - 72,128,713UniSTS
RH 3.4 Map17723.7UniSTS
Cytogenetic Map17q12.3UniSTS
RH137918  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,840,541 - 72,840,723 (+)MAPPER
Rnor_6.01776,789,380 - 76,789,561NCBIRnor6.0
Rnor_5.01778,445,076 - 78,445,257UniSTSRnor5.0
RGSC_v3.41783,918,804 - 83,918,985UniSTSRGSC3.4
Celera1772,285,613 - 72,285,794UniSTS
RH 3.4 Map17723.7UniSTS
Cytogenetic Map17q12.3UniSTS
BM385825  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21772,585,399 - 72,585,554 (+)MAPPER
Rnor_6.01776,535,907 - 76,536,061NCBIRnor6.0
Rnor_5.01778,190,910 - 78,191,064UniSTSRnor5.0
RGSC_v3.41783,653,500 - 83,653,654UniSTSRGSC3.4
Celera1772,032,684 - 72,032,838UniSTS
RH 3.4 Map17729.3UniSTS
Cytogenetic Map17q12.3UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173205588277922655Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173330362778303627Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173330362785321557Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173628324577922655Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)174117605786176057Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)174117605786176057Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)174173108086731080Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174254187285446768Rat
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174435615789356157Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)175241095790843779Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)175241095790843779Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175347518090690466Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)175387148890843779Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175399194790843779Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175622429686731080Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)176219582286194199Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176549735982019219Rat
1300131Bp193Blood pressure QTL 1933.3arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)176700421277922655Rat
7411577Bw141Body weight QTL 1410.001body mass (VT:0001259)body weight gain (CMO:0000420)176751265790843779Rat
631502Cm26Cardiac mass QTL 263.71heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)176933327285183543Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)177485263085183543Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)177570542786731080Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:856
Count of miRNA genes:320
Interacting mature miRNAs:434
Transcripts:ENSRNOT00000024099
Prediction methods:Microtar, Miranda, Pita, 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 7 1 9 1 42
Low 1 42 50 40 10 40 7 8 32 35 41 11 7
Below cutoff 1 1 3 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024099   ⟹   ENSRNOP00000024099
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1776,532,611 - 76,938,956 (+)Ensembl
RefSeq Acc Id: NM_001107365   ⟹   NP_001100835
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21772,581,979 - 72,980,556 (+)NCBI
Rnor_6.01776,532,611 - 76,938,956 (+)NCBI
Rnor_5.01778,187,614 - 78,538,315 (+)NCBI
Rnor_5.01778,552,005 - 78,591,805 (+)NCBI
RGSC_v3.41783,649,720 - 84,061,160 (+)RGD
Celera1772,029,264 - 72,426,573 (+)RGD
Sequence:
RefSeq Acc Id: XM_039095777   ⟹   XP_038951705
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21772,581,899 - 72,982,704 (+)NCBI
RefSeq Acc Id: XM_039095778   ⟹   XP_038951706
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21772,581,900 - 72,982,704 (+)NCBI
RefSeq Acc Id: XM_039095779   ⟹   XP_038951707
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21772,620,777 - 72,982,704 (+)NCBI
RefSeq Acc Id: XM_039095780   ⟹   XP_038951708
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21772,617,989 - 72,982,704 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100835   ⟸   NM_001107365
- Sequence:
RefSeq Acc Id: ENSRNOP00000024099   ⟸   ENSRNOT00000024099
RefSeq Acc Id: XP_038951705   ⟸   XM_039095777
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951706   ⟸   XM_039095778
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038951708   ⟸   XM_039095780
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038951707   ⟸   XM_039095779
- Peptide Label: isoform X3
Protein Domains
Protein kinase

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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 (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/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 (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:1560691 AgrOrtholog
Ensembl Genes ENSRNOG00000017882 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024099 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024099 ENTREZGENE, UniProtKB/TrEMBL
InterPro Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/TrEMBL
NCBI Gene 307124 ENTREZGENE
Pfam Pkinase UniProtKB/TrEMBL
PhenoGen Camk1d PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
SMART S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
UniProt F1LVR4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-11 Camk1d  calcium/calmodulin-dependent protein kinase ID  RGD1560691  similar to calcium/calmodulin-dependent protein kinase 1D  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1560691  similar to calcium/calmodulin-dependent protein kinase 1D   RGD1560691_predicted  similar to calcium/calmodulin-dependent protein kinase 1D (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560691_predicted  similar to calcium/calmodulin-dependent protein kinase 1D (predicted)  LOC307124  similar to calcium/calmodulin-dependent protein kinase 1D  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC307124  similar to calcium/calmodulin-dependent protein kinase 1D      Symbol and Name status set to provisional 70820 PROVISIONAL