Dclk3 (doublecortin-like kinase 3) - Rat Genome Database

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Gene: Dclk3 (doublecortin-like kinase 3) Rattus norvegicus
Analyze
Symbol: Dclk3
Name: doublecortin-like kinase 3
RGD ID: 1309232
Description: Predicted to enable protein serine/threonine kinase activity. Predicted to be involved in protein localization to nucleus. Predicted to act upstream of or within negative regulation of protein localization to nucleus and peptidyl-serine phosphorylation. Predicted to be active in cytoplasm and nucleus. Orthologous to human DCLK3 (doublecortin like kinase 3); INTERACTS WITH 6-propyl-2-thiouracil; acrylamide; amitrole.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Dcamkl3; doublecortin and CaM kinase-like 3; LOC316023; RGD1309232; serine/threonine-protein kinase DCLK3; similar to hypothetical protein C730036H08
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88120,279,916 - 120,332,362 (+)NCBIGRCr8
mRatBN7.28111,401,544 - 111,453,999 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8111,401,358 - 111,453,999 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8117,017,621 - 117,069,994 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08115,216,862 - 115,269,245 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08113,059,687 - 113,112,073 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08119,691,567 - 119,744,484 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8119,691,388 - 119,744,506 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08119,040,830 - 119,093,605 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48115,830,472 - 115,883,560 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18115,849,754 - 115,902,190 (+)NCBI
Celera8110,683,369 - 110,735,326 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA,IEA,ISO)
nucleus  (IBA,IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16684769   PMID:16869982   PMID:19103603   PMID:20236041  


Genomics

Comparative Map Data
Dclk3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88120,279,916 - 120,332,362 (+)NCBIGRCr8
mRatBN7.28111,401,544 - 111,453,999 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8111,401,358 - 111,453,999 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8117,017,621 - 117,069,994 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08115,216,862 - 115,269,245 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08113,059,687 - 113,112,073 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08119,691,567 - 119,744,484 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8119,691,388 - 119,744,506 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08119,040,830 - 119,093,605 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48115,830,472 - 115,883,560 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18115,849,754 - 115,902,190 (+)NCBI
Celera8110,683,369 - 110,735,326 (+)NCBICelera
Cytogenetic Map8q32NCBI
DCLK3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38336,712,421 - 36,764,553 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl336,712,421 - 36,764,553 (-)EnsemblGRCh38hg38GRCh38
GRCh37336,753,912 - 36,806,044 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36336,728,917 - 36,756,356 (-)NCBINCBI36Build 36hg18NCBI36
Celera336,696,656 - 36,724,088 (-)NCBICelera
Cytogenetic Map3p22.2NCBI
HuRef336,694,656 - 36,722,087 (-)NCBIHuRef
CHM1_1336,704,133 - 36,731,552 (-)NCBICHM1_1
T2T-CHM13v2.0336,713,774 - 36,765,897 (-)NCBIT2T-CHM13v2.0
Dclk3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399111,268,149 - 111,318,679 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9111,268,149 - 111,318,186 (+)EnsemblGRCm39 Ensembl
GRCm389111,439,081 - 111,489,611 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9111,439,081 - 111,489,118 (+)EnsemblGRCm38mm10GRCm38
MGSCv379111,341,585 - 111,392,115 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369111,283,929 - 111,333,929 (+)NCBIMGSCv36mm8
Celera9111,166,896 - 111,211,288 (+)NCBICelera
Cytogenetic Map9F3NCBI
cM Map961.33NCBI
Dclk3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554213,590,455 - 3,636,801 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554213,593,328 - 3,618,427 (-)NCBIChiLan1.0ChiLan1.0
DCLK3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2236,673,826 - 36,726,054 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1336,678,590 - 36,730,815 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0336,620,793 - 36,670,506 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1336,911,427 - 36,936,326 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl336,911,427 - 36,936,326 (-)Ensemblpanpan1.1panPan2
DCLK3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1236,631,052 - 6,662,949 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha236,670,192 - 6,703,255 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0236,915,927 - 6,948,984 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1236,735,483 - 6,768,548 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0236,878,025 - 6,910,766 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0236,868,873 - 6,901,240 (-)NCBIUU_Cfam_GSD_1.0
Dclk3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118193,161,622 - 193,203,351 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647326,299,761 - 26,341,884 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647326,300,195 - 26,320,953 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DCLK3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1322,040,510 - 22,095,473 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11322,040,518 - 22,095,477 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21323,860,743 - 23,989,814 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DCLK3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1152,641,036 - 2,690,573 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl152,666,575 - 2,693,611 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606311,378,325 - 11,429,770 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dclk3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478814,753,483 - 14,787,715 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478814,753,550 - 14,787,721 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dclk3
552 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:317
Count of miRNA genes:211
Interacting mature miRNAs:238
Transcripts:ENSRNOT00000044742
Prediction methods:Microtar, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat

Markers in Region
AW529479  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28111,453,853 - 111,454,003 (+)MAPPERmRatBN7.2
Rnor_6.08119,744,339 - 119,744,488NCBIRnor6.0
Rnor_5.08119,093,460 - 119,093,609UniSTSRnor5.0
RGSC_v3.48115,883,415 - 115,883,564UniSTSRGSC3.4
Celera8110,735,181 - 110,735,330UniSTS
RH 3.4 Map81192.0UniSTS
Cytogenetic Map8q32UniSTS
RH137832  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28111,453,393 - 111,453,525 (+)MAPPERmRatBN7.2
Rnor_6.08119,743,879 - 119,744,010NCBIRnor6.0
Rnor_5.08119,093,000 - 119,093,131UniSTSRnor5.0
RGSC_v3.48115,882,955 - 115,883,086UniSTSRGSC3.4
Celera8110,734,721 - 110,734,852UniSTS
RH 3.4 Map81191.5UniSTS
Cytogenetic Map8q32UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 47 113 74 73 42 24 42 6 198 94 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000044742   ⟹   ENSRNOP00000046063
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8111,401,358 - 111,453,999 (+)Ensembl
Rnor_6.0 Ensembl8119,691,388 - 119,744,506 (+)Ensembl
RefSeq Acc Id: NM_001191800   ⟹   NP_001178729
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,279,916 - 120,332,362 (+)NCBI
mRatBN7.28111,401,544 - 111,453,999 (+)NCBI
Rnor_6.08119,691,567 - 119,744,484 (+)NCBI
Rnor_5.08119,040,830 - 119,093,605 (+)NCBI
Celera8110,683,369 - 110,735,326 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178729 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000046063
  ENSRNOP00000046063.4
RefSeq Acc Id: NP_001178729   ⟸   NM_001191800
- UniProtKB: F1LWF2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000046063   ⟸   ENSRNOT00000044742
Protein Domains
Doublecortin   Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LWF2-F1-model_v2 AlphaFold F1LWF2 1-807 view protein structure

Transcriptome

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

Promoters
RGD ID:13696347
Promoter ID:EPDNEW_R6871
Type:single initiation site
Name:Dclk3_1
Description:doublecortin-like kinase 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_6.08119,691,406 - 119,691,466EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309232 AgrOrtholog
BioCyc Gene G2FUF-29019 BioCyc
Ensembl Genes ENSRNOG00000033026 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000044742 ENTREZGENE
  ENSRNOT00000044742.6 UniProtKB/TrEMBL
Gene3D-CATH 3.10.20.230 UniProtKB/TrEMBL
  Phosphorylase Kinase, domain 1 UniProtKB/TrEMBL
  Transferase(Phosphotransferase) domain 1 UniProtKB/TrEMBL
InterPro Doublecortin_dom UniProtKB/TrEMBL
  Doublecortin_dom_sf UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  Prot_kinase_cat_dom UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/TrEMBL
KEGG Report rno:316023 UniProtKB/TrEMBL
NCBI Gene 316023 ENTREZGENE
PANTHER SERINE/THREONINE-PROTEIN KINASE UniProtKB/TrEMBL
Pfam DCX UniProtKB/TrEMBL
  Pkinase UniProtKB/TrEMBL
PhenoGen Dclk3 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/TrEMBL
  PS50309 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000033026 RatGTEx
SMART DCX UniProtKB/TrEMBL
  S_TKc UniProtKB/TrEMBL
Superfamily-SCOP Kinase_like UniProtKB/TrEMBL
  SSF89837 UniProtKB/TrEMBL
UniProt F1LWF2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Dclk3  doublecortin-like kinase 3   Dclk3_predicted  doublecortin-like kinase 3 (predicted)  'predicted' is removed 2292626 APPROVED
2007-04-03 Dclk3_predicted  doublecortin-like kinase 3 (predicted)  Dcamkl3_predicted  doublecortin and CaM kinase-like 3 (predicted)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2006-03-30 Dcamkl3_predicted  doublecortin and CaM kinase-like 3 (predicted)  RGD1309232_predicted  similar to hypothetical protein C730036H08 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1309232_predicted  similar to hypothetical protein C730036H08 (predicted)  LOC316023_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC316023_predicted  similar to hypothetical protein C730036H08 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL