Cdkl3 (cyclin-dependent kinase-like 3) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Cdkl3 (cyclin-dependent kinase-like 3) Rattus norvegicus
Analyze
Symbol: Cdkl3
Name: cyclin-dependent kinase-like 3
RGD ID: 619874
Description: Predicted to have ATP binding activity and protein kinase activity. Involved in dendrite extension; negative regulation of axon extension; and positive regulation of dendrite morphogenesis. Localizes to cytoplasm and nucleus. Orthologous to human CDKL3 (cyclin dependent kinase like 3); INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 2,4-dinitrotoluene; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC103694901; Nkiatre; Nkiatreb; serine/threonine kinase NKIATRE; serine/threonine kinase NKIATRE beta; serine/threonine protein kinase NKIATRE
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
mRatBN7.21036,263,212 - 36,349,268 (+)NCBI
Rnor_6.0 Ensembl1037,458,452 - 37,493,491 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01037,458,397 - 37,510,345 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01037,227,962 - 37,315,393 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41037,527,865 - 37,552,851 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1035,621,986 - 35,646,386 (+)NCBICelera
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IDA)
nucleus  (IBA,IDA)

References

Additional References at PubMed
PMID:8889548   PMID:15057822  


Genomics

Comparative Map Data
Cdkl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21036,263,212 - 36,349,268 (+)NCBI
Rnor_6.0 Ensembl1037,458,452 - 37,493,491 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01037,458,397 - 37,510,345 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01037,227,962 - 37,315,393 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41037,527,865 - 37,552,851 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1035,621,986 - 35,646,386 (+)NCBICelera
Cytogenetic Map10q22NCBI
CDKL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5134,286,350 - 134,371,047 (-)EnsemblGRCh38hg38GRCh38
GRCh385134,236,120 - 134,372,380 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375133,634,115 - 133,706,734 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365133,671,591 - 133,730,113 (-)NCBINCBI36hg18NCBI36
Build 345133,671,590 - 133,730,113NCBI
Celera5129,757,884 - 129,826,544 (-)NCBI
Cytogenetic Map5q31.1NCBI
HuRef5128,818,996 - 128,887,557 (-)NCBIHuRef
CHM1_15133,066,750 - 133,139,362 (-)NCBICHM1_1
Cdkl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391151,891,694 - 51,980,605 (+)NCBIGRCm39mm39
GRCm39 Ensembl1151,895,048 - 51,980,611 (+)Ensembl
GRCm381152,000,842 - 52,089,778 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1152,004,221 - 52,089,784 (+)EnsemblGRCm38mm10GRCm38
MGSCv371151,817,723 - 51,898,169 (+)NCBIGRCm37mm9NCBIm37
MGSCv361151,847,745 - 51,881,588 (+)NCBImm8
Celera1156,572,516 - 56,652,949 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
Cdkl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554085,471,700 - 5,552,572 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554085,466,943 - 5,552,572 (-)NCBIChiLan1.0ChiLan1.0
LOC100980501
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15135,852,296 - 135,925,175 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5135,852,530 - 135,921,269 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05129,701,972 - 129,774,627 (-)NCBIMhudiblu_PPA_v0panPan3
CDKL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1122,432,720 - 22,522,050 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11122,416,098 - 22,524,629 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cdkl3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936647914,057 - 961,953 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDKL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2136,574,971 - 136,652,131 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12136,585,248 - 136,648,515 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22142,212,422 - 142,223,609 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDKL3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12337,039,133 - 37,176,406 (-)NCBI
ChlSab1.1 Ensembl2337,107,949 - 37,175,449 (-)Ensembl
Cdkl3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473337,910,890 - 37,968,821 (+)NCBI

Position Markers
RH132769  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01037,458,677 - 37,458,879NCBIRnor6.0
Rnor_5.01037,231,787 - 37,231,989UniSTSRnor5.0
RGSC_v3.41037,528,052 - 37,528,254UniSTSRGSC3.4
Celera1035,622,173 - 35,622,375UniSTS
RH 3.4 Map10390.5UniSTS
Cytogenetic Map10q22UniSTS
RH133033  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01037,494,122 - 37,494,315NCBIRnor6.0
Rnor_5.01037,268,701 - 37,268,894UniSTSRnor5.0
RGSC_v3.41037,564,834 - 37,565,027UniSTSRGSC3.4
Celera1035,657,659 - 35,657,852UniSTS
RH 3.4 Map10387.2UniSTS
Cytogenetic Map10q22UniSTS
AU049026  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01037,472,495 - 37,472,725NCBIRnor6.0
Rnor_5.01037,245,886 - 37,246,117NCBIRnor5.0
RGSC_v3.41037,541,870 - 37,542,100UniSTSRGSC3.4
Celera1035,635,961 - 35,636,191UniSTS
Cytogenetic Map10q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138594330Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142669970Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)10144902893Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101824639453637634Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum total immunoglobulin E level (CMO:0001542)102240281738204229Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102488408447487910Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)103002135454057745Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103566946546851407Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103658437353645194Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103658437366539843Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103658456066015527Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:17
Count of miRNA genes:17
Interacting mature miRNAs:17
Transcripts:ENSRNOT00000059040
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3
Low 19 13 2 12 2 118 29 58 12
Below cutoff 6 60 61 43 20 43 10 12 11 40 20 9 10

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_021772 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773883 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773884 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773886 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008773889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017602531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086737 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489936 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_597993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07024291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01063836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01063837 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01063838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC091229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC130253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF112183 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF112184 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW523244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BI296078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000079411   ⟹   ENSRNOP00000072310
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1037,458,452 - 37,493,491 (+)Ensembl
RefSeq Acc Id: NM_021772   ⟹   NP_068540
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,977 - 36,291,302 (+)NCBI
Rnor_6.01037,458,490 - 37,482,849 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
RGSC_v3.41037,527,865 - 37,552,851 (+)RGD
Celera1035,621,986 - 35,646,386 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246323   ⟹   XP_006246385
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,397 - 37,503,372 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246325   ⟹   XP_006246387
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,398 - 37,503,372 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246326   ⟹   XP_006246388
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,397 - 37,503,372 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246329   ⟹   XP_006246391
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,397 - 37,503,372 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246332   ⟹   XP_006246394
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,399 - 37,493,693 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246333   ⟹   XP_006246395
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,400 - 37,486,568 (+)NCBI
Rnor_5.01037,227,962 - 37,315,393 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767705   ⟹   XP_008765927
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,398 - 37,493,694 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767706   ⟹   XP_008765928
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,400 - 37,491,168 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767707   ⟹   XP_008765929
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,400 - 37,488,192 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773883   ⟹   XP_008772105
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,889 - 36,311,829 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773884   ⟹   XP_008772106
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,891 - 36,311,827 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773885   ⟹   XP_008772107
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,888 - 36,311,829 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773886   ⟹   XP_008772108
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,889 - 36,311,828 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008773889   ⟹   XP_008772111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,892 - 36,301,301 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597503   ⟹   XP_017452992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,458,398 - 37,510,345 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597504   ⟹   XP_017452993
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01037,474,132 - 37,503,375 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602529   ⟹   XP_017458018
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,891 - 36,349,268 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017602531   ⟹   XP_017458020
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,282,568 - 36,312,568 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039086735   ⟹   XP_038942663
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,263,525 - 36,311,829 (+)NCBI
RefSeq Acc Id: XM_039086736   ⟹   XP_038942664
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,263,468 - 36,311,829 (+)NCBI
RefSeq Acc Id: XM_039086737   ⟹   XP_038942665
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,263,742 - 36,311,829 (+)NCBI
RefSeq Acc Id: XM_039086738   ⟹   XP_038942666
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,263,212 - 36,311,829 (+)NCBI
RefSeq Acc Id: XM_039086739   ⟹   XP_038942667
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,884 - 36,295,034 (+)NCBI
RefSeq Acc Id: XR_005489935
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,890 - 36,296,453 (+)NCBI
RefSeq Acc Id: XR_005489936
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,885 - 36,294,922 (+)NCBI
RefSeq Acc Id: XR_597993
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21036,266,893 - 36,349,268 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_068540   ⟸   NM_021772
- UniProtKB: Q9JM01 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006246388   ⟸   XM_006246326
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006246387   ⟸   XM_006246325
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006246385   ⟸   XM_006246323
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006246394   ⟸   XM_006246332
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006246395   ⟸   XM_006246333
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006246391   ⟸   XM_006246329
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008765927   ⟸   XM_008767705
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008765928   ⟸   XM_008767706
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_008765929   ⟸   XM_008767707
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017452992   ⟸   XM_017597503
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017452993   ⟸   XM_017597504
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: ENSRNOP00000072310   ⟸   ENSRNOT00000079411
RefSeq Acc Id: XP_038942666   ⟸   XM_039086738
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942664   ⟸   XM_039086736
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942663   ⟸   XM_039086735
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942665   ⟸   XM_039086737
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942667   ⟸   XM_039086739
- Peptide Label: isoform X6
RefSeq Acc Id: XP_008772107   ⟸   XM_008773885
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008772105   ⟸   XM_008773883
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008772108   ⟸   XM_008773886
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017458018   ⟸   XM_017602529
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008772106   ⟸   XM_008773884
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008772111   ⟸   XM_008773889
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017458020   ⟸   XM_017602531
- Peptide Label: isoform X5
- Sequence:
Protein Domains
Protein kinase

Transcriptome

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

Promoters
RGD ID:13697167
Promoter ID:EPDNEW_R7692
Type:multiple initiation site
Name:Cdkl3_1
Description:cyclin-dependent kinase-like 3
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_6.01037,458,470 - 37,458,530EPDNEW

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619874 AgrOrtholog
Ensembl Genes ENSRNOG00000054806 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00000059485 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068841 UniProtKB/Swiss-Prot
  ENSRNOP00000072310 UniProtKB/TrEMBL
  ENSRNOP00000073449 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000079411 UniProtKB/TrEMBL
  ENSRNOT00000085895 UniProtKB/TrEMBL
  ENSRNOT00000087152 UniProtKB/Swiss-Prot
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:60396 UniProtKB/Swiss-Prot
NCBI Gene 60396 ENTREZGENE
Pfam Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdkl3 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K2N2_RAT UniProtKB/TrEMBL
  A0A0G2K5J4_RAT UniProtKB/TrEMBL
  CDKL3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q9JM02 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-02-13 Cdkl3  cyclin-dependent kinase-like 3  LOC103694901  cyclin-dependent kinase-like 3  Data Merged 737654 APPROVED
2014-08-25 LOC103694901  cyclin-dependent kinase-like 3      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Cdkl3  cyclin-dependent kinase-like 3  Nkiatreb  serine/threonine kinase NKIATRE beta  Symbol and Name updated 1299863 APPROVED
2002-08-07 Nkiatreb  serine/threonine kinase NKIATRE beta      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains a cyclin-binding domain 633468
gene_protein contains two isoforms, of which one has a nuclear localization signal 633468