Prkdc (protein kinase, DNA activated, catalytic polypeptide) - Rat Genome Database

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Gene: Prkdc (protein kinase, DNA activated, catalytic polypeptide) Mus musculus
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Symbol: Prkdc
Name: protein kinase, DNA activated, catalytic polypeptide
RGD ID: 1319073
MGI Page MGI
Description: Enables DNA-dependent protein kinase activity; double-stranded DNA binding activity; and enzyme binding activity. Involved in several processes, including regulation of hematopoietic stem cell differentiation; regulation of hemopoiesis; and regulation of protein metabolic process. Acts upstream of or within several processes, including DNA metabolic process; ectopic germ cell programmed cell death; and hemopoiesis. Located in nucleus. Is expressed in several structures, including central nervous system; liver; neural retina; and thymus primordium. Used to study Duchenne muscular dystrophy; severe combined immunodeficiency, autosomal recessive, T cell-negative, B cell-negative, Nk cell-positive; and type 1 diabetes mellitus. Human ortholog(s) of this gene implicated in immunodeficiency 26. Orthologous to human PRKDC (protein kinase, DNA-activated, catalytic subunit).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AI326420; AU019811; DNA; DNA-; DNA-dependent protein kinase catalytic subunit; DNA-PK catalytic subunit; DNA-PKcs; DNAPDcs; DNAPK; DNPK1; DOX; DOXNPH; doxorubicin nephropathy; dxn; dxnph; HYRC1; p460; scid; severe combined immunodeficiency; slip; XRCC; XRCC7
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391615,455,698 - 15,660,103 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1615,455,730 - 15,660,099 (+)EnsemblGRCm39 Ensembl
GRCm381615,637,444 - 15,842,239 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1615,637,866 - 15,842,235 (+)EnsemblGRCm38mm10GRCm38
MGSCv371615,637,959 - 15,842,332 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361615,551,467 - 15,755,813 (+)NCBIMGSCv36mm8
Celera1616,214,291 - 16,413,213 (+)NCBICelera
Cytogenetic Map16A2NCBI
cM Map1610.09NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



  
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Original Reference(s)
PrkdcMouseBrain Hypoxia-Ischemia treatmentISORGD:130898239938998 RGD 
PrkdcMousesevere combined immunodeficiency  ISORGD:13089828696027 RGD 
PrkdcMousesevere combined immunodeficiency  IAGP 1599202 RGD 
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PrkdcMousebreast cancer  ISORGD:13190728554872ClinVar Annotator: match by term: Malignant tumor of breastClinVarPMID:25741868|PMID:28492532
PrkdcMouseimmunodeficiency 26  ISORGD:13190728554872ClinVar Annotator: match by term: PRKDC-related condition | ClinVar Annotator: match by term: Severe combined more ...ClinVarPMID:16199547|PMID:17576681|PMID:19075392|PMID:23722905|PMID:25640679|PMID:25741868|PMID:25842288|PMID:26122175|PMID:28492532|PMID:29987844|PMID:30121298|PMID:30778343|PMID:37580814|PMID:9536098
PrkdcMousemicrocephaly  ISORGD:13190728554872ClinVar Annotator: match by term: MicrocephalyClinVarPMID:25741868
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PrkdcMouseadenoid cystic carcinoma  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:23685749
PrkdcMouseChemical and Drug Induced Liver Injury  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:21224054
PrkdcMousehepatic encephalopathy  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:21224054
PrkdcMouselung disease  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:17200189
PrkdcMouseMassive Hepatic Necrosis  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:21224054
PrkdcMousePoisoning  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:20036648
PrkdcMouseProstatic Neoplasms  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:17196815|PMID:25415046
PrkdcMousesquamous cell carcinoma  ISORGD:131907211554173CTD Direct Evidence: marker/mechanismCTDPMID:25125259
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PrkdcMousesevere combined immunodeficiency, autosomal recessive, T cell-negative, B cell-negative, NK cell-positive  IAGP 13592920OMIM:601457MouseDO 
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PrkdcMouseimmunodeficiency 26  ISORGD:13190727240710 OMIM 

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Original Reference(s)
PrkdcMouse(+)-schisandrin B multiple interactionsISORGD:13089826480464schizandrin B inhibits the reaction [Carbon Tetrachloride results in decreased expression of PRKDC mRNA]CTDPMID:31150632
PrkdcMouse(-)-alpha-phellandrene decreases expressionEXP 6480464alpha phellandrene results in decreased expression of PRKDC proteinCTDPMID:24861204
PrkdcMouse(-)-demecolcine decreases expressionISORGD:13190726480464Demecolcine results in decreased expression of PRKDC mRNACTDPMID:23649840
PrkdcMouse(1->4)-beta-D-glucan multiple interactionsEXP 6480464[perfluorooctane sulfonic acid co-treated with Cellulose] results in increased expression of PRKDC mRNACTDPMID:36331819
PrkdcMouse1,2-dimethylhydrazine increases expressionEXP 64804641,2-Dimethylhydrazine results in increased expression of PRKDC mRNACTDPMID:22206623
PrkdcMouse1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile decreases expressionISORGD:13089826480464Citalopram results in decreased expression of PRKDC mRNACTDPMID:28467792
PrkdcMouse1-chloro-2,4-dinitrobenzene affects bindingISORGD:13190726480464Dinitrochlorobenzene binds to PRKDC proteinCTDPMID:32991956
PrkdcMouse1-nitropyrene increases expressionISORGD:131907264804641-nitropyrene results in increased expression of PRKDC proteinCTDPMID:28633978
PrkdcMouse17beta-estradiol decreases expressionISORGD:13190726480464Estradiol results in decreased expression of PRKDC mRNACTDPMID:15223131
PrkdcMouse17beta-estradiol multiple interactionsISORGD:13190726480464[Estradiol co-treated with Norethindrone Acetate] results in increased expression of PRKDC mRNACTDPMID:22217510
PrkdcMouse17beta-estradiol increases expressionEXP 6480464Estradiol results in increased expression of PRKDC mRNACTDPMID:39298647
PrkdcMouse17beta-estradiol increases expressionISORGD:13190726480464Estradiol results in increased expression of PRKDC mRNACTDPMID:16514628|PMID:23019147|PMID:31614463
PrkdcMouse2,2',4,4'-Tetrabromodiphenyl ether increases expressionISORGD:131907264804642,2',4,4'-tetrabromodiphenyl ether results in increased expression of PRKDC proteinCTDPMID:22233939
PrkdcMouse2,2',4,4'-Tetrabromodiphenyl ether decreases expressionISORGD:131907264804642,2',4,4'-tetrabromodiphenyl ether results in decreased expression of PRKDC proteinCTDPMID:31675489
PrkdcMouse2,2',4,4'-Tetrabromodiphenyl ether affects response to substanceISORGD:13190726480464PRKDC protein affects the susceptibility to 2,2',4,4'-tetrabromodiphenyl etherCTDPMID:22233939
PrkdcMouse2,3,7,8-tetrachlorodibenzodioxine decreases expressionISORGD:13089826480464Tetrachlorodibenzodioxin results in decreased expression of PRKDC mRNACTDPMID:32109520|PMID:33387578
PrkdcMouse2,3,7,8-Tetrachlorodibenzofuran decreases expressionISORGD:130898264804642,3,7,8-tetrachlorodibenzofuran results in decreased expression of PRKDC mRNACTDPMID:32109520
PrkdcMouse2,4,6-tribromophenol decreases expressionISORGD:131907264804642,4,6-tribromophenol results in decreased expression of PRKDC mRNACTDPMID:31675489
PrkdcMouse2,6-dimethoxyphenol multiple interactionsISORGD:13190726480464[Furaldehyde co-treated with pyrogallol 1,3-dimethyl ether] results in decreased expression of PRKDC protein; [Sodium Chloride more ...CTDPMID:38598786
PrkdcMouse3,3',5,5'-tetrabromobisphenol A decreases expressionISORGD:13190726480464tetrabromobisphenol A results in decreased expression of PRKDC proteinCTDPMID:31675489

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Biological Process
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Original Reference(s)
PrkdcMouseactivation of innate immune response involved_inIEAUniProtKB:P78527|ensembl:ENSP000003134202290270 EnsemblGO_REF:0000107
PrkdcMouseactivation of innate immune response involved_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMouseB cell lineage commitment acts_upstream_of_or_withinIMPMGI:18571132290270 PMID:8788039MGIPMID:8788039
PrkdcMousebrain development acts_upstream_of_or_withinIGIMGI:1072022290270 PMID:16687486MGIPMID:16687486
PrkdcMousecellular response to insulin stimulus involved_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousecellular response to insulin stimulus involved_inIEAUniProtKB:P78527|ensembl:ENSP000003134202290270 EnsemblGO_REF:0000107
PrkdcMousechromatin remodeling involved_inIEAGO:0035175|GO:00359792290270 GOCGO_REF:0000108
PrkdcMouseDNA damage response involved_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMouseDNA damage response involved_inISSUniProtKB:P785272290270 UniProtGO_REF:0000024
PrkdcMousedouble-strand break repair involved_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousedouble-strand break repair acts_upstream_of_or_withinIMPMGI:26675932290270 PMID:11751629MGIPMID:11751629
PrkdcMousedouble-strand break repair acts_upstream_of_or_withinIMPMGI:18571132290270 PMID:12604618MGIPMID:12604618
PrkdcMousedouble-strand break repair involved_inIBAPANTHER:PTN001673367|UniProtKB:P78527|MGI:104779|dictyBase:DDB_G02811672290270 GO_CentralGO_REF:0000033
PrkdcMousedouble-strand break repair via nonhomologous end joining involved_inNAS 2290270 PMID:10207111ComplexPortalPMID:10207111
PrkdcMousedouble-strand break repair via nonhomologous end joining acts_upstream_of_or_withinIMP 2290270 PMID:23836881MGIPMID:23836881
PrkdcMouseectopic germ cell programmed cell death acts_upstream_of_or_withinIMPMGI:26675932290270 PMID:17145779MGIPMID:17145779
PrkdcMouseheart development acts_upstream_of_or_withinIGIMGI:1072022290270 PMID:16687486MGIPMID:16687486
PrkdcMouseimmature B cell differentiation acts_upstream_of_or_withinIMPMGI:23839512290270 PMID:9768755MGIPMID:9768755
PrkdcMouseimmunoglobulin production  ISORGD:13089829068941 RGDPMID:22981234|REF_RGD_ID:8696027
PrkdcMouseimmunoglobulin V(D)J recombination involved_inIBAPANTHER:PTN002596777|ZFIN:ZDB-GENE-030131-9008|MGI:1047792290270 GO_CentralGO_REF:0000033
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Cellular Component
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Original Reference(s)
PrkdcMousechromatin located_inIEAUniProtKB:P78527|ensembl:ENSP000003134202290270 EnsemblGO_REF:0000107
PrkdcMousechromatin located_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousechromatin is_active_inISORGD:13190729068941 PMID:29478807UniProtPMID:29478807
PrkdcMousecytosol located_inIEAUniProtKB-SubCell:SL-00912290270 UniProtGO_REF:0000044
PrkdcMouseDNA-dependent protein kinase complex part_ofISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMouseDNA-dependent protein kinase complex part_ofISOComplexPortal:CPX-34032290270 ComplexPortalGO_REF:0000114
PrkdcMouseDNA-dependent protein kinase-DNA ligase 4 complex part_ofISOUniProtKB:P785272290270 GO_CentralGO_REF:0000008|GO_REF:0000119
PrkdcMouseDNA-dependent protein kinase-DNA ligase 4 complex part_ofISSUniProtKB:P785272290270 UniProtGO_REF:0000024
PrkdcMousenonhomologous end joining complex part_ofISSUniProtKB:P785272290270 UniProtGO_REF:0000024
PrkdcMousenonhomologous end joining complex part_ofISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousenucleolus located_inIEAUniProtKB-SubCell:SL-01882290270 UniProtGO_REF:0000044
PrkdcMousenucleolus located_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousenucleoplasm located_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousenucleoplasm located_inIEAUniProtKB:P78527|ensembl:ENSP000003134202290270 EnsemblGO_REF:0000107
PrkdcMousenucleus located_inISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousenucleus located_inIDA 2290270 PMID:12604618MGIPMID:12604618
PrkdcMousenucleus is_active_inIBAPANTHER:PTN000124197|MGI:104779|PomBase:SPBC216.07c|FB:FBgn0053554|UniProtKB:Q13315|MGI:1928394|UniProtKB:P78527|PomBase:SPAC1F5.11c|UniProtKB:Q96Q15|MGI:108028|WB:WBGene00007028|TAIR:locus:2060933|UniProtKB:Q9Y4A5|TAIR:locus:2031090|FB:FBgn0045035|SGD:S000003827|SGD:S000001141|WB:WBGene00000226|UniProtKB:Q13535|SGD:S000000340|UniProtKB:P42345|MGI:107202|SGD:S000000184|dictyBase:DDB_G0281569|UniProtKB:Q586K5|PomBase:SPBC216.05|TAIR:locus:5049553592290270 GO_CentralGO_REF:0000033
PrkdcMouseprotein-containing complex part_ofISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMouseprotein-DNA complex part_ofISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMouseprotein-DNA complex part_ofIEAUniProtKB:P78527|ensembl:ENSP000003134202290270 EnsemblGO_REF:0000107
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Molecular Function
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Original Reference(s)
PrkdcMouse3-phosphoinositide-dependent protein kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMouseAMP-activated protein kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMouseATP binding enablesIEAUniProtKB-KW:KW-00672290270 UniProtGO_REF:0000043
PrkdcMouseDNA-dependent protein kinase activity enablesIDA 2290270 PMID:23836881MGIPMID:23836881
PrkdcMouseDNA-dependent protein kinase activity enablesISOUniProtKB:P785272290270 MGIGO_REF:0000008
PrkdcMousedouble-stranded DNA binding enablesISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousedouble-stranded DNA binding enablesIDA 2290270 PMID:20150414MGIPMID:20150414
PrkdcMouseenzyme binding enablesIPIUniProtKB:P047972290270 PMID:20972425UniProtPMID:20972425
PrkdcMouseeukaryotic translation initiation factor 2alpha kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H2AS1 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H2AS121 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H2AT120 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H2AXS139 kinase activity enablesISOUniProtKB:P785272290270 GO_CentralGO_REF:0000119
PrkdcMousehistone H2AXS139 kinase activity enablesISSUniProtKB:P785272290270 UniProtGO_REF:0000024
PrkdcMousehistone H2BS14 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H2BS36 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H3S10 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H3S28 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H3S57 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
PrkdcMousehistone H3T11 kinase activity enablesIEAEC:2.7.11.12290270 UniProtGO_REF:0000003
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RGD Manual Annotations


  
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Original Reference(s)
PrkdcMousenon-homologous end joining pathway of double-strand break repair   ISORGD:13190728662352 RGD 

Imported Annotations - KEGG (archival)

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Original Reference(s)
PrkdcMousecell cycle pathway, mitotic  IEA 6907045 KEGGmmu:04110
PrkdcMousenon-homologous end joining pathway of double-strand break repair   IEA 6907045 KEGGmmu:03450

Imported Annotations - PID (archival)

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PrkdcMousephosphatidylinositol 3-kinase-Akt signaling pathway   ISORGD:13190726484113 PIDPID:200197
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Original Reference(s)
PrkdcMouseabnormal B cell differentiation  IAGP 5509061 MGIPMID:9768755
PrkdcMouseabnormal B cell physiology  IEA 5509061 MGI 
PrkdcMouseabnormal brain morphology  IAGP 5509061 MGIPMID:17920451
PrkdcMouseabnormal brainstem morphology  IAGP 5509061 MGIPMID:17920451
PrkdcMouseabnormal CD4-positive T cell differentiation  IEA 5509061 MGI 
PrkdcMouseabnormal CD4-positive, alpha beta T cell morphology  IAGP 5509061 MGIPMID:10725754
PrkdcMouseabnormal CD4-positive, alpha beta T cell morphology  IAGP 5509061 MGIPMID:8094405
PrkdcMouseabnormal CD8-positive, alpha beta T cell morphology  IAGP 5509061 MGIPMID:8094405
PrkdcMouseabnormal CD8-positive, alpha-beta T cell differentiation  IEA 5509061 MGI 
PrkdcMouseabnormal cerebellar cortex morphology  IAGP 5509061 MGIPMID:17920451
PrkdcMouseabnormal cerebellum morphology  IAGP 5509061 MGIPMID:17920451
PrkdcMouseabnormal chromosome morphology  IAGP 5509061 MGIPMID:12897131
PrkdcMouseabnormal circulating protein level  IAGP 5509061 MGIPMID:7541529
PrkdcMouseabnormal class switch recombination  IAGP 5509061 MGIPMID:19450527
PrkdcMouseabnormal class switch recombination  IAGP 5509061 MGIPMID:22761313
PrkdcMouseabnormal colon morphology  IAGP 5509061 MGIPMID:9990036
PrkdcMouseabnormal complement pathway  IAGP 5509061 MGIPMID:8806787
PrkdcMouseabnormal complement pathway  IAGP 5509061 MGIPMID:7995938
PrkdcMouseabnormal DNA repair  IAGP 5509061 MGIPMID:21482716
PrkdcMouseabnormal double-positive T cell morphology  IAGP 5509061 MGIPMID:8094405
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Reference Title
Reference Citation
1. Nonsense mutation at Tyr-4046 in the DNA-dependent protein kinase catalytic subunit of severe combined immune deficiency mice. Araki R, etal., Proc Natl Acad Sci U S A. 1997 Mar 18;94(6):2438-43.
2. Severe-combined immunodeficient rats can be used to generate a model of perinatal hypoxic-ischemic brain injury to facilitate studies of engrafted human neural stem cells. Beldick SR, etal., PLoS One. 2018 Nov 28;13(11):e0208105. doi: 10.1371/journal.pone.0208105. eCollection 2018.
3. The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway. Lieber MR Annu Rev Biochem. 2010;79:181-211. doi: 10.1146/annurev.biochem.052308.093131.
4. Generation and characterization of severe combined immunodeficiency rats. Mashimo T, etal., Cell Rep. 2012 Sep 27;2(3):685-94. doi: 10.1016/j.celrep.2012.08.009. Epub 2012 Sep 13.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. MGD IEA MGD IEA
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
9. Mouse MP Annotation Import Pipeline RGD automated import pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
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PMID:1104226   PMID:1331523   PMID:1358814   PMID:1373084   PMID:1373493   PMID:1406659   PMID:1460420   PMID:1500852   PMID:1506683   PMID:1531270   PMID:1570153   PMID:1571284  
PMID:1580330   PMID:1639480   PMID:1639500   PMID:1661315   PMID:1733671   PMID:1804782   PMID:1818304   PMID:1830433   PMID:1996340   PMID:2412448   PMID:2908877   PMID:3093081  
PMID:3297105   PMID:3416632   PMID:3519770   PMID:3553324   PMID:4107291   PMID:6607948   PMID:6823332   PMID:7479885   PMID:7507860   PMID:7513537   PMID:7520728   PMID:7526201  
PMID:7535341   PMID:7535789   PMID:7547707   PMID:7559863   PMID:7561218   PMID:7578854   PMID:7586691   PMID:7589844   PMID:7590935   PMID:7600284   PMID:7600297   PMID:7600561  
PMID:7603011   PMID:7606793   PMID:7638222   PMID:7650476   PMID:7662981   PMID:7666867   PMID:7669664   PMID:7688088   PMID:7692193   PMID:7716261   PMID:7717446   PMID:7729614  
PMID:7732570   PMID:7751632   PMID:7769315   PMID:7770944   PMID:7775830   PMID:7790314   PMID:7796294   PMID:7797796   PMID:7835983   PMID:7850767   PMID:7855601   PMID:7860404  
PMID:7873382   PMID:7876540   PMID:7877992   PMID:7889411   PMID:7889575   PMID:7890426   PMID:7896825   PMID:7911241   PMID:7943168   PMID:7957574   PMID:7962563   PMID:7966017  
PMID:7971996   PMID:7981149   PMID:7983705   PMID:7983730   PMID:7989611   PMID:7995938   PMID:8004820   PMID:8029889   PMID:8047070   PMID:8057678   PMID:8073516   PMID:8075241  
PMID:8077678   PMID:8084602   PMID:8084613   PMID:8090783   PMID:8094405   PMID:8097186   PMID:8100803   PMID:8103346   PMID:8106771   PMID:8119666   PMID:8133891   PMID:8140728  
PMID:8161803   PMID:8196630   PMID:8212584   PMID:8245777   PMID:8256843   PMID:8258726   PMID:8261415   PMID:8263505   PMID:8267959   PMID:8270250   PMID:8281031   PMID:8299696  
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Prkdc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391615,455,698 - 15,660,103 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1615,455,730 - 15,660,099 (+)EnsemblGRCm39 Ensembl
GRCm381615,637,444 - 15,842,239 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1615,637,866 - 15,842,235 (+)EnsemblGRCm38mm10GRCm38
MGSCv371615,637,959 - 15,842,332 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361615,551,467 - 15,755,813 (+)NCBIMGSCv36mm8
Celera1616,214,291 - 16,413,213 (+)NCBICelera
Cytogenetic Map16A2NCBI
cM Map1610.09NCBI
PRKDC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38847,773,111 - 47,960,136 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl847,773,111 - 47,960,178 (-)EnsemblGRCh38hg38GRCh38
GRCh37848,685,672 - 48,872,696 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36848,848,222 - 49,035,296 (-)NCBINCBI36Build 36hg18NCBI36
Build 34848,848,221 - 49,035,296NCBI
Celera844,671,051 - 44,858,151 (-)NCBICelera
Cytogenetic Map8q11.21NCBI
HuRef844,148,581 - 44,335,706 (-)NCBIHuRef
CHM1_1848,738,053 - 48,925,105 (-)NCBICHM1_1
T2T-CHM13v2.0848,149,356 - 48,336,384 (-)NCBIT2T-CHM13v2.0
Prkdc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81198,544,952 - 98,762,499 (-)NCBIGRCr8
mRatBN7.21185,040,790 - 85,258,357 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1185,040,792 - 85,257,952 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1193,767,902 - 93,984,974 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01186,429,067 - 86,646,132 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01185,482,663 - 85,699,739 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01189,293,547 - 89,510,948 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1189,293,696 - 89,510,871 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01192,347,175 - 92,565,022 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41186,951,420 - 87,169,229 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11186,992,362 - 87,209,825 (-)NCBI
Celera1183,781,535 - 83,998,574 (-)NCBICelera
Cytogenetic Map11q23NCBI
Prkdc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554547,733,978 - 7,890,867 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554547,733,697 - 7,890,896 (-)NCBIChiLan1.0ChiLan1.0
PRKDC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2763,407,112 - 63,593,508 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1839,100,871 - 39,287,251 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0844,201,391 - 44,386,803 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1841,593,022 - 41,778,299 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl841,593,029 - 41,778,299 (-)Ensemblpanpan1.1panPan2
PRKDC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12924,904 - 243,926 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2935,007 - 243,895 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha29449,958 - 669,362 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02920,665 - 241,975 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2922,025 - 241,944 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12920,944 - 240,298 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.029218,160 - 435,150 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.029285,564 - 503,393 (-)NCBIUU_Cfam_GSD_1.0
Prkdc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530379,533,069 - 79,697,823 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365904,722,873 - 4,890,156 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365904,722,914 - 4,887,615 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKDC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl479,687,375 - 79,846,656 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1479,687,375 - 79,850,146 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2487,185,946 - 87,343,690 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRKDC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1843,915,226 - 44,119,547 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl843,914,636 - 44,119,541 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603997,968,963 - 98,158,648 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prkdc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247357,534,506 - 7,700,305 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247357,534,483 - 7,702,079 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.

.
Variants in Prkdc
5957 total Variants

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:90
Interacting mature miRNAs:105
Transcripts:ENSMUST00000023352, ENSMUST00000182134
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


1 to 10 of 32 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1301970Heal11_mwound healing/regeneration 11 (mouse)Not determined16124263853Mouse
26884376Skwq4_mskull length QTL 4, 5 week (mouse)16841786490896888Mouse
1301841Lrnx9_mlearning-contextual 9 (mouse)Not determined161222536046225471Mouse
4142460Nilac10_mnicotine induced locomotor activity 10 (mouse)Not determined16713690629225471Mouse
38501069Tip4_mtuberculosis immunophenotype 4, IFN-g level (mouse)16431786444520363Mouse
1302106Rapop1_mradiation-induced apoptosis 1 (mouse)Not determined16378077915731053Mouse
26884432Zlq7_mzygomatic length QTL 7, 10 week (mouse)16381786464620363Mouse
1300632Loca2_mlocomotor activity 2 (mouse)Not determined16122500574Mouse
1301086Lprm5_mlymphoproliferation modifier 5 (mouse)Not determined161184882445848923Mouse
27226768Tibl9_mtibia length 9, 5 week (mouse)16331786451420363Mouse

1 to 10 of 32 rows
RH136293  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381615,841,895 - 15,842,093UniSTSGRCm38
MGSCv371615,841,988 - 15,842,186UniSTSGRCm37
Celera1616,412,869 - 16,413,067UniSTS
Cytogenetic Map16B1UniSTS
RH136614  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381074,863,278 - 74,863,478UniSTSGRCm38
GRCm381615,736,447 - 15,736,646UniSTSGRCm38
MGSCv371074,326,023 - 74,326,223UniSTSGRCm37
MGSCv371615,736,540 - 15,736,739UniSTSGRCm37
Celera1616,314,791 - 16,314,990UniSTS
Celera1075,913,613 - 75,913,813UniSTS
Cytogenetic Map10B5.3UniSTS
Cytogenetic Map16B1UniSTS
Cytogenetic Map10C2UniSTS
cM Map1039.0UniSTS
RH131824  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381615,841,994 - 15,842,176UniSTSGRCm38
MGSCv371615,842,087 - 15,842,269UniSTSGRCm37
Celera1616,412,968 - 16,413,150UniSTS
Cytogenetic Map16B1UniSTS
AI326420  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381615,841,932 - 15,842,023UniSTSGRCm38
MGSCv371615,842,025 - 15,842,116UniSTSGRCm37
Celera1616,412,906 - 16,412,997UniSTS
Cytogenetic Map16B1UniSTS
Whitehead/MRC_RH16123.99UniSTS
06.MMHAP95FRB9.seq  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381615,699,438 - 15,699,589UniSTSGRCm38
MGSCv371615,699,531 - 15,699,682UniSTSGRCm37
Celera1616,277,768 - 16,277,919UniSTS
Cytogenetic Map16B1UniSTS
Whitehead_YAC16 UniSTS
D87521  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381615,842,071 - 15,842,176UniSTSGRCm38
MGSCv371615,842,164 - 15,842,269UniSTSGRCm37
Celera1616,413,045 - 16,413,150UniSTS
Cytogenetic Map16B1UniSTS
Whitehead/MRC_RH16122.18UniSTS






1 to 27 of 27 rows
RefSeq Transcripts NM_011159 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006521861 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017316892 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB000629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB007544 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB011543 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB030754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC111103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC154586 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ315658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ315659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ315660 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ315661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK084827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK088981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK137732 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AU019811 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC028664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CT010522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CT030649 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D83786 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D87521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ235257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ235258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U78157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U78158 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
1 to 27 of 27 rows

Ensembl Acc Id: ENSMUST00000023352   ⟹   ENSMUSP00000023352
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1615,455,753 - 15,660,099 (+)Ensembl
GRCm38.p6 Ensembl1615,637,889 - 15,842,235 (+)Ensembl
Ensembl Acc Id: ENSMUST00000182134
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1615,455,730 - 15,502,613 (+)Ensembl
GRCm38.p6 Ensembl1615,637,866 - 15,684,749 (+)Ensembl
RefSeq Acc Id: NM_011159   ⟹   NP_035289
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391615,455,730 - 15,660,103 (+)NCBI
GRCm381615,637,866 - 15,842,239 (+)NCBI
MGSCv371615,637,959 - 15,842,332 (+)RGD
Celera1616,214,291 - 16,413,213 (+)RGD
cM Map16 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006521861   ⟹   XP_006521924
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391615,455,698 - 15,627,532 (+)NCBI
GRCm381615,637,444 - 15,809,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017316892   ⟹   XP_017172381
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391615,455,698 - 15,625,889 (+)NCBI
GRCm381615,637,444 - 15,808,027 (+)NCBI
Sequence:
RefSeq Acc Id: NP_035289   ⟸   NM_011159
- UniProtKB: Q8C2A7 (UniProtKB/Swiss-Prot),   Q3V2W8 (UniProtKB/Swiss-Prot),   Q307W9 (UniProtKB/Swiss-Prot),   P97928 (UniProtKB/Swiss-Prot),   O88187 (UniProtKB/Swiss-Prot),   E9QN15 (UniProtKB/Swiss-Prot),   Q9Z341 (UniProtKB/Swiss-Prot),   P97313 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006521924   ⟸   XM_006521861
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017172381   ⟸   XM_017316892
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSMUSP00000023352   ⟸   ENSMUST00000023352
FAT   FATC   PI3K/PI4K catalytic

RGD ID:6827382
Promoter ID:MM_KWN:20228
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_008565,   NM_011159,   UC007YHS.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361615,637,301 - 15,638,067 (+)MPROMDB
RGD ID:8685536
Promoter ID:EPDNEW_M20799
Type:multiple initiation site
Name:Prkdc_1
Description:Mus musculus protein kinase, DNA activated, catalytic polypeptide, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381615,637,866 - 15,637,926EPDNEW


1 to 40 of 60 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSMUSG00000022672 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000023352 ENTREZGENE
  ENSMUST00000023352.9 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.1070.11 UniProtKB/Swiss-Prot
  Phosphatidylinositol 3-kinase Catalytic Subunit, Chain A, domain 4 UniProtKB/Swiss-Prot
InterPro ARM-type_fold UniProtKB/Swiss-Prot
  DDR_Repair_Kinase UniProtKB/Swiss-Prot
  DNA-PK_dom UniProtKB/Swiss-Prot
  DNA-PKcs_N UniProtKB/Swiss-Prot
  DNAPKcs_CC1-2 UniProtKB/Swiss-Prot
  DNAPKcs_CC5 UniProtKB/Swiss-Prot
  FATC_dom UniProtKB/Swiss-Prot
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  NUC194 UniProtKB/Swiss-Prot
  PI3/4_kinase_cat_dom UniProtKB/Swiss-Prot
  PI3/4_kinase_cat_sf UniProtKB/Swiss-Prot
  PI3/4_kinase_CS UniProtKB/Swiss-Prot
  PIK-rel_kinase_FAT UniProtKB/Swiss-Prot
  PIK_FAT UniProtKB/Swiss-Prot
KEGG Report mmu:19090 UniProtKB/Swiss-Prot
MGD MGI:104779 ENTREZGENE
NCBI Gene 19090 ENTREZGENE
PANTHER ATAXIA TELANGIECTASIA MUTATED ATM -RELATED UniProtKB/Swiss-Prot
  DNA-DEPENDENT PROTEIN KINASE CATALYTIC SUBUNIT UniProtKB/Swiss-Prot
Pfam DNA-PKcs_N UniProtKB/Swiss-Prot
  DNAPKcs_CC1-2 UniProtKB/Swiss-Prot
  DNAPKcs_CC5 UniProtKB/Swiss-Prot
  FAT UniProtKB/Swiss-Prot
  FATC UniProtKB/Swiss-Prot
  NUC194 UniProtKB/Swiss-Prot
  PI3_PI4_kinase UniProtKB/Swiss-Prot
PhenoGen Prkdc PhenoGen
PROSITE FAT UniProtKB/Swiss-Prot
  FATC UniProtKB/Swiss-Prot
  PI3_4_KINASE_1 UniProtKB/Swiss-Prot
  PI3_4_KINASE_2 UniProtKB/Swiss-Prot
  PI3_4_KINASE_3 UniProtKB/Swiss-Prot
SMART FATC UniProtKB/Swiss-Prot
  NUC194 UniProtKB/Swiss-Prot
  PI3Kc UniProtKB/Swiss-Prot
1 to 40 of 60 rows