Cdc42bpa (CDC42 binding protein kinase alpha) - Rat Genome Database

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Gene: Cdc42bpa (CDC42 binding protein kinase alpha) Rattus norvegicus
Analyze
Symbol: Cdc42bpa
Name: CDC42 binding protein kinase alpha
RGD ID: 621406
Description: Enables several functions, including ATP binding activity; identical protein binding activity; and magnesium ion binding activity. Involved in several processes, including actin cytoskeleton organization; protein phosphorylation; and regulation of small GTPase mediated signal transduction. Located in actomyosin; cell leading edge; and cell-cell junction. Orthologous to human CDC42BPA (CDC42 binding protein kinase alpha); INTERACTS WITH 1,1-dichloroethene; 2,3,7,8-Tetrachlorodibenzofuran; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: CDC42-binding protein kinase alpha; Mrck; MRCK alpha; myotonic dystrophy kinase-related CDC42-binding kinase alpha; myotonic dystrophy protein kinase-like alpha; mytonic dystrophy kinase-related Cdc42-binding kinase; Pk428; Ser-Thr protein kinase related to the myotonic dystrophy protein kinase; serine/threonine-protein kinase MRCK alpha
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21391,683,775 - 91,903,732 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
Rnor_6.01398,231,326 - 98,447,762 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1398,231,326 - 98,447,762 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013103,238,053 - 103,453,991 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41395,640,342 - 95,865,501 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11395,829,277 - 96,054,435 (+)NCBI
Celera1391,234,788 - 91,448,806 (+)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
actomyosin  (IBA,IDA,IEA,ISO)
cell leading edge  (IDA)
cell-cell junction  (IDA)
cytoplasm  (IBA,IEA)
cytoskeleton  (IBA)
lamellipodium  (IEA,ISO,ISS)

Molecular Function

References

Additional References at PubMed
PMID:9092543   PMID:11340065   PMID:11399775   PMID:15882626   PMID:17702745   PMID:19056867   PMID:21457715   PMID:23414517  


Genomics

Comparative Map Data
Cdc42bpa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21391,683,775 - 91,903,732 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
Rnor_6.01398,231,326 - 98,447,762 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1398,231,326 - 98,447,762 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013103,238,053 - 103,453,991 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41395,640,342 - 95,865,501 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11395,829,277 - 96,054,435 (+)NCBI
Celera1391,234,788 - 91,448,806 (+)NCBICelera
Cytogenetic Map13q26NCBI
CDC42BPA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1226,989,865 - 227,318,502 (-)EnsemblGRCh38hg38GRCh38
GRCh381226,989,858 - 227,318,502 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371227,177,559 - 227,506,193 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361225,244,189 - 225,572,449 (-)NCBINCBI36hg18NCBI36
Build 341223,486,787 - 223,812,561NCBI
Celera1200,368,385 - 200,714,137 (-)NCBI
Cytogenetic Map1q42.13NCBI
HuRef1197,694,156 - 198,022,367 (-)NCBIHuRef
CHM1_11228,450,048 - 228,778,008 (-)NCBICHM1_1
Cdc42bpa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391179,787,058 - 179,993,171 (+)NCBIGRCm39mm39
GRCm39 Ensembl1179,788,037 - 179,993,168 (+)Ensembl
GRCm381179,960,079 - 180,165,606 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1179,960,472 - 180,165,603 (+)EnsemblGRCm38mm10GRCm38
MGSCv371181,891,220 - 182,095,733 (+)NCBIGRCm37mm9NCBIm37
MGSCv361181,797,234 - 182,002,443 (+)NCBImm8
Celera1187,025,201 - 187,227,563 (+)NCBICelera
Cytogenetic Map1H4NCBI
Cdc42bpa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554069,906,195 - 10,174,465 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554069,906,195 - 10,178,281 (+)NCBIChiLan1.0ChiLan1.0
CDC42BPA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11207,438,330 - 207,767,265 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1207,438,330 - 207,766,907 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01202,448,571 - 202,780,486 (-)NCBIMhudiblu_PPA_v0panPan3
CDC42BPA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1737,775,133 - 38,084,136 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl737,775,127 - 38,081,733 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha737,257,758 - 37,566,798 (+)NCBI
ROS_Cfam_1.0737,608,217 - 37,918,760 (+)NCBI
UMICH_Zoey_3.1737,448,901 - 37,757,738 (+)NCBI
UNSW_CanFamBas_1.0737,456,073 - 37,764,872 (+)NCBI
UU_Cfam_GSD_1.0737,725,913 - 38,035,278 (+)NCBI
Cdc42bpa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934450,751,931 - 51,060,891 (+)NCBI
SpeTri2.0NW_0049365263,686,403 - 3,996,035 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDC42BPA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1014,649,277 - 14,940,825 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11014,649,278 - 14,940,988 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21016,930,459 - 17,259,392 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CDC42BPA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1252,463,764 - 2,777,699 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl252,464,952 - 2,773,353 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660552,418,681 - 2,742,409 (+)NCBIVero_WHO_p1.0
Cdc42bpa
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477112,314,566 - 12,591,071 (-)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655959Pur32Proteinuria QTL 328.4total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:89
Count of miRNA genes:70
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000003837
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.


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 1 40 41 28 13 28 8 8 74 35 37 11 8
Low 2 3 16 13 6 13 3 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090237 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090238 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090246 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090248 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090251 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090256 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090265 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC139413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF021935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000003837   ⟹   ENSRNOP00000003837
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
Rnor_6.0 Ensembl1398,231,326 - 98,447,762 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082844   ⟹   ENSRNOP00000073612
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,768,441 - 91,903,732 (+)Ensembl
Rnor_6.0 Ensembl1398,311,827 - 98,447,312 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102712   ⟹   ENSRNOP00000093143
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000105577   ⟹   ENSRNOP00000081450
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109203   ⟹   ENSRNOP00000086891
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116713   ⟹   ENSRNOP00000077481
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119463   ⟹   ENSRNOP00000078690
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1391,684,007 - 91,903,732 (+)Ensembl
RefSeq Acc Id: NM_053657   ⟹   NP_446109
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,684,007 - 91,903,732 (+)NCBI
Rnor_6.01398,231,326 - 98,447,762 (+)NCBI
Rnor_5.013103,238,053 - 103,453,991 (+)NCBI
RGSC_v3.41395,640,342 - 95,865,501 (+)RGD
Celera1391,234,788 - 91,448,806 (+)RGD
Sequence:
RefSeq Acc Id: XM_039090234   ⟹   XP_038946162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,776 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090235   ⟹   XP_038946163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,776 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090236   ⟹   XP_038946164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,777 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090237   ⟹   XP_038946165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,777 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090238   ⟹   XP_038946166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,776 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090239   ⟹   XP_038946167
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,776 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090240   ⟹   XP_038946168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,777 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090242   ⟹   XP_038946170
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,777 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090243   ⟹   XP_038946171
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090244   ⟹   XP_038946172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090245   ⟹   XP_038946173
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090246   ⟹   XP_038946174
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,777 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090247   ⟹   XP_038946175
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090248   ⟹   XP_038946176
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,779 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090249   ⟹   XP_038946177
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090250   ⟹   XP_038946178
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,777 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090251   ⟹   XP_038946179
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,779 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090253   ⟹   XP_038946181
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090254   ⟹   XP_038946182
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090255   ⟹   XP_038946183
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,775 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090256   ⟹   XP_038946184
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090257   ⟹   XP_038946185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,780 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090258   ⟹   XP_038946186
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,728,703 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090259   ⟹   XP_038946187
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,781 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090260   ⟹   XP_038946188
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,775 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090261   ⟹   XP_038946189
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,782 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090262   ⟹   XP_038946190
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,778 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090264   ⟹   XP_038946192
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,781 - 91,903,732 (+)NCBI
RefSeq Acc Id: XM_039090265   ⟹   XP_038946193
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,775 - 91,899,787 (+)NCBI
RefSeq Acc Id: XM_039090266   ⟹   XP_038946194
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21391,683,781 - 91,903,732 (+)NCBI
Protein Sequences
Protein RefSeqs NP_446109 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946162 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946163 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946164 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946165 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946166 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946167 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946168 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946170 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946171 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946172 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946173 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946174 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946175 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946176 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946177 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946178 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946179 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946181 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946182 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946183 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946184 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946185 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946186 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946187 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946188 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946189 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946190 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946192 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946193 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946194 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC02941 (Get FASTA)   NCBI Sequence Viewer  
  EDL94816 (Get FASTA)   NCBI Sequence Viewer  
  EDL94817 (Get FASTA)   NCBI Sequence Viewer  
  O54874 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446109   ⟸   NM_053657
- Sequence:
RefSeq Acc Id: ENSRNOP00000073612   ⟸   ENSRNOT00000082844
RefSeq Acc Id: ENSRNOP00000003837   ⟸   ENSRNOT00000003837
RefSeq Acc Id: XP_038946183   ⟸   XM_039090255
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038946188   ⟸   XM_039090260
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038946193   ⟸   XM_039090265
- Peptide Label: isoform X29
RefSeq Acc Id: XP_038946162   ⟸   XM_039090234
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946163   ⟸   XM_039090235
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038946166   ⟸   XM_039090238
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038946167   ⟸   XM_039090239
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038946168   ⟸   XM_039090240
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038946170   ⟸   XM_039090242
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038946164   ⟸   XM_039090236
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038946165   ⟸   XM_039090237
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038946178   ⟸   XM_039090250
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038946174   ⟸   XM_039090246
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038946171   ⟸   XM_039090243
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038946173   ⟸   XM_039090245
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038946172   ⟸   XM_039090244
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038946177   ⟸   XM_039090249
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038946175   ⟸   XM_039090247
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038946181   ⟸   XM_039090253
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038946182   ⟸   XM_039090254
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038946184   ⟸   XM_039090256
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038946190   ⟸   XM_039090262
- Peptide Label: isoform X27
RefSeq Acc Id: XP_038946176   ⟸   XM_039090248
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038946179   ⟸   XM_039090251
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038946185   ⟸   XM_039090257
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038946187   ⟸   XM_039090259
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038946192   ⟸   XM_039090264
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038946194   ⟸   XM_039090266
- Peptide Label: isoform X30
RefSeq Acc Id: XP_038946189   ⟸   XM_039090261
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038946186   ⟸   XM_039090258
- Peptide Label: isoform X23
RefSeq Acc Id: ENSRNOP00000093143   ⟸   ENSRNOT00000102712
RefSeq Acc Id: ENSRNOP00000086891   ⟸   ENSRNOT00000109203
RefSeq Acc Id: ENSRNOP00000078690   ⟸   ENSRNOT00000119463
RefSeq Acc Id: ENSRNOP00000081450   ⟸   ENSRNOT00000105577
RefSeq Acc Id: ENSRNOP00000077481   ⟸   ENSRNOT00000116713
Transcriptome

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

Promoters
RGD ID:13699055
Promoter ID:EPDNEW_R9580
Type:single initiation site
Name:Cdc42bpa_1
Description:CDC42 binding protein kinase alpha
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_6.01398,231,519 - 98,231,579EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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)
ACI/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
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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)
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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/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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:621406 AgrOrtholog
Ensembl Genes ENSRNOG00000002841 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003837 UniProtKB/TrEMBL
  ENSRNOP00000073612 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003837 UniProtKB/TrEMBL
  ENSRNOT00000082844 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AGC-kinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CNH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CRIB_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KELK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Myotonic_dystrophy_kinase_coil UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PE/DAG-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase_C 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
  Ser/Thr_kinase_MRCK_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:114116 UniProtKB/Swiss-Prot
NCBI Gene 114116 ENTREZGENE
PANTHER PTHR22988:SF31 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam C1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CNH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DMPK_coil UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KELK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cdc42bpa PhenoGen
PROSITE AGC_KINASE_CTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CNH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CRIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_DAG_PE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_DAG_PE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CNH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S_TK_X UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00109 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K5Z1_RAT UniProtKB/TrEMBL
  G3V6C9_RAT UniProtKB/TrEMBL
  MRCKA_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Cdc42bpa  CDC42 binding protein kinase alpha  Pk428  Ser-Thr protein kinase related to the myotonic dystrophy protein kinase  Symbol and Name updated 1299863 APPROVED
2002-08-07 Pk428  Ser-Thr protein kinase related to the myotonic dystrophy protein kinase      Symbol and Name status set to provisional 70820 PROVISIONAL