Pxk (PX domain containing serine/threonine kinase) - Rat Genome Database
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Gene: Pxk (PX domain containing serine/threonine kinase) Rattus norvegicus
Analyze
Symbol: Pxk
Name: PX domain containing serine/threonine kinase
RGD ID: 727819
Description: Predicted to have protein C-terminus binding activity. Predicted to be involved in several processes, including inflammatory response; modulation of chemical synaptic transmission; and negative regulation of ATPase activity. Predicted to localize to several cellular components, including centriolar satellite; cytosol; and nucleus. Orthologous to human PXK (PX domain containing serine/threonine kinase like); INTERACTS WITH 17alpha-ethynylestradiol; 3,3',4,4',5-pentachlorobiphenyl; amphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: MGC114238; modulator of Na,K-ATPase; MONaKA; PX domain-containing protein kinase-like protein; PX serine/threonine kinase
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
mRatBN7.21516,759,857 - 16,828,452 (-)NCBI
Rnor_6.0 Ensembl1518,548,212 - 18,616,589 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01518,548,209 - 18,616,617 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01522,515,244 - 22,583,076 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41518,744,748 - 18,815,195 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11518,744,747 - 18,815,195 (-)NCBI
Celera1516,718,088 - 16,763,954 (-)NCBICelera
Cytogenetic Map15p14NCBI
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

Cellular Component
cellular_component  (ND)
centriolar satellite  (IEA,ISO)
cytoplasm  (IBA,ISO,ISS)
cytosol  (IEA,ISO)
nucleus  (ISO)
plasma membrane  (IBA,IEA,ISO)
protein-containing complex  (IEA,ISO)

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:16135750   PMID:16142408   PMID:17606467   PMID:18204446  


Genomics

Comparative Map Data
Pxk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21516,759,857 - 16,828,452 (-)NCBI
Rnor_6.0 Ensembl1518,548,212 - 18,616,589 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01518,548,209 - 18,616,617 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01522,515,244 - 22,583,076 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41518,744,748 - 18,815,195 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11518,744,747 - 18,815,195 (-)NCBI
Celera1516,718,088 - 16,763,954 (-)NCBICelera
Cytogenetic Map15p14NCBI
PXK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl358,332,880 - 58,426,127 (+)EnsemblGRCh38hg38GRCh38
GRCh38358,332,890 - 58,426,127 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37358,318,617 - 58,411,815 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh37358,318,619 - 58,411,854 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36358,293,657 - 58,385,918 (+)NCBINCBI36hg18NCBI36
Build 34358,293,656 - 58,385,918NCBI
Celera358,333,171 - 58,424,771 (+)NCBI
Cytogenetic Map3p14.3NCBI
HuRef358,415,213 - 58,507,044 (+)NCBIHuRef
CHM1_1358,268,906 - 58,362,119 (+)NCBICHM1_1
Pxk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391414,304,656 - 14,371,593 (-)NCBIGRCm39mm39
GRCm38148,098,180 - 8,165,117 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl148,098,211 - 8,165,117 (+)EnsemblGRCm38mm10GRCm38
MGSCv37148,930,727 - 8,997,625 (+)NCBIGRCm37mm9NCBIm37
MGSCv36146,890,122 - 6,956,645 (+)NCBImm8
Celera143,744,197 - 3,788,968 (+)NCBICelera
Cytogenetic Map14A1NCBI
cM Map144.7NCBI
Pxk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554301,714,208 - 1,765,102 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554301,714,208 - 1,780,674 (-)NCBIChiLan1.0ChiLan1.0
PXK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1359,711,754 - 59,774,616 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl359,711,749 - 59,773,556 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0358,265,626 - 58,358,247 (+)NCBIMhudiblu_PPA_v0panPan3
PXK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2032,193,339 - 32,272,774 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12032,138,320 - 32,272,767 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Pxk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049364732,587,145 - 2,635,083 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PXK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1340,062,404 - 40,160,383 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11340,079,238 - 40,160,387 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21344,039,928 - 44,120,689 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PXK
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12219,622,364 - 19,717,245 (+)NCBI
ChlSab1.1 Ensembl2219,622,402 - 19,711,127 (+)Ensembl
Pxk
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248225,413,558 - 5,481,578 (+)NCBI

Position Markers
BI297004  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01518,549,024 - 18,549,185NCBIRnor6.0
Rnor_5.01522,516,059 - 22,516,220UniSTSRnor5.0
RGSC_v3.41518,745,560 - 18,745,721UniSTSRGSC3.4
Celera1516,718,900 - 16,719,061UniSTS
RH 3.4 Map15137.2UniSTS
Cytogenetic Map15p14UniSTS
RH137973  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01518,558,327 - 18,558,497NCBIRnor6.0
Rnor_5.01522,525,270 - 22,525,440UniSTSRnor5.0
Celera1516,727,695 - 16,727,865UniSTS
RH 3.4 Map15139.7UniSTS
Cytogenetic Map15p14UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15130597196Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15137708474Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15137708474Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15137708474Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15232787726288802Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15232787726288802Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151071919155719191Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151549236072568189Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151582824233657761Rat
9590272Scort14Serum corticosterone level QTL 142.780.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)151698090761980907Rat
8694427Bw163Body weight QTL 1634.820.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)151698090761980907Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151724964162249641Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151809320881255430Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151851391388036354Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:286
Count of miRNA genes:155
Interacting mature miRNAs:195
Transcripts:ENSRNOT00000010763
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 31 51 35 19 35 74 35 31 11
Low 12 6 6 6 8 11 10 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_182821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251775 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251776 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008770539 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093420 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093421 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005493742 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC093960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY327408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098901 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000010763   ⟹   ENSRNOP00000010763
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1518,548,212 - 18,616,589 (-)Ensembl
RefSeq Acc Id: NM_182821   ⟹   NP_877973
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,759,860 - 16,828,422 (-)NCBI
Rnor_6.01518,548,212 - 18,616,589 (-)NCBI
Rnor_5.01522,515,244 - 22,583,076 (-)NCBI
RGSC_v3.41518,744,748 - 18,815,195 (-)RGD
Celera1516,718,088 - 16,763,954 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251775   ⟹   XP_006251837
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,759,857 - 16,828,450 (-)NCBI
Rnor_6.01518,548,209 - 18,616,617 (-)NCBI
Rnor_5.01522,515,244 - 22,583,076 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251776   ⟹   XP_006251838
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,760,925 - 16,828,450 (-)NCBI
Rnor_6.01518,549,314 - 18,616,617 (-)NCBI
Rnor_5.01522,515,244 - 22,583,076 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770537   ⟹   XP_008768759
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01518,550,540 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770539   ⟹   XP_008768761
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,759,857 - 16,793,384 (-)NCBI
Rnor_6.01518,548,209 - 18,581,736 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599722   ⟹   XP_017455211
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,759,857 - 16,828,450 (-)NCBI
Rnor_6.01518,548,209 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599723   ⟹   XP_017455212
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,773,180 - 16,828,451 (-)NCBI
Rnor_6.01518,561,532 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599724   ⟹   XP_017455213
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01518,550,540 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599725   ⟹   XP_017455214
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,760,924 - 16,828,450 (-)NCBI
Rnor_6.01518,549,314 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599726   ⟹   XP_017455215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,760,925 - 16,828,450 (-)NCBI
Rnor_6.01518,549,314 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599727   ⟹   XP_017455216
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,760,752 - 16,828,450 (-)NCBI
Rnor_6.01518,549,104 - 18,616,617 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093420   ⟹   XP_038949348
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,770,316 - 16,828,450 (-)NCBI
RefSeq Acc Id: XM_039093421   ⟹   XP_038949349
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,760,861 - 16,828,452 (-)NCBI
RefSeq Acc Id: XR_005493742
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21516,760,762 - 16,828,452 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_877973   ⟸   NM_182821
- UniProtKB: Q4FZZ1 (UniProtKB/Swiss-Prot),   A0A140TAA2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251837   ⟸   XM_006251775
- Peptide Label: isoform X1
- UniProtKB: Q4FZZ1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006251838   ⟸   XM_006251776
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008768761   ⟸   XM_008770539
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_008768759   ⟸   XM_008770537
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017455211   ⟸   XM_017599722
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017455216   ⟸   XM_017599727
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017455215   ⟸   XM_017599726
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017455214   ⟸   XM_017599725
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017455213   ⟸   XM_017599724
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017455212   ⟸   XM_017599723
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000010763   ⟸   ENSRNOT00000010763
RefSeq Acc Id: XP_038949349   ⟸   XM_039093421
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038949348   ⟸   XM_039093420
- Peptide Label: isoform X8
Protein Domains
Protein kinase   PX   WH2

Transcriptome

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

Promoters
RGD ID:13699590
Promoter ID:EPDNEW_R10113
Type:multiple initiation site
Name:Pxk_1
Description:PX domain containing serine/threonine kinase
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_6.01518,616,543 - 18,616,603EPDNEW

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)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 22536439 22536440 G A snv ACI/EurMcwi (MCW), ZFDM (KyushuU), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MHS/Gib (KNAW), MR/N (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), BBDP/WorN (KNAW), SBH/Ygl (KNAW), F344/NRrrc (Illumina) (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), M520/N (KNAW), MNS/Gib (KNAW), SDLEF7/Barth (UDEL), LE/OrlBarth (UDEL), Crl:SD (UDEL), IS/Kyo (KyushuU), BUF/MNa (KyushuU), NIG-III/Hok (KyushuU), F344/DuCrlCrlj (KyushuU), LE/Stm (KyushuU), HTX/Kyo (KyushuU), F344/NSlc (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), F344/Stm (KyushuU), HWY/Slc (KyushuU), LEC/Tj (KyushuU), F344/Jcl (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), KFRS3B/Kyo (KyushuU), ZF (KyushuU), COP/CrCrl (MCW & UW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 18569622 18569623 G A snv ACI/EurMcwi (MCW), WAG/Rij (RGD), GH/OmrMcwi (MCW), SBH/Ygl (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), CDR, CDS, ACI/N (MCW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), MR/N (MCW), FHL/EurMcwi (RGD), ACI/EurMcwi (RGD), BBDP/Wor (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), GK/Ox (RGD), LE/Stm (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), SR/JrHsd (RGD), SS/JrHsdMcwi (RGD), COP/CrCrl (MCW & UW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:727819 AgrOrtholog
Ensembl Genes ENSRNOG00000008024 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010763 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010763 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.30.1520.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7127537 IMAGE-MGC_LOAD
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MONaKA_PX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Phox UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PX_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:306203 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:114238 IMAGE-MGC_LOAD
NCBI Gene 306203 ENTREZGENE
Pfam PF00787 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pxk PhenoGen
PROSITE PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50195 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00312 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF64268 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A140TAA2 ENTREZGENE, UniProtKB/TrEMBL
  PXK_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q7TNZ7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Pxk  PX domain containing serine/threonine kinase    PX serine/threonine kinase  Name updated 1299863 APPROVED