Pi4ka (phosphatidylinositol 4-kinase alpha) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Pi4ka (phosphatidylinositol 4-kinase alpha) Rattus norvegicus
Analyze
Symbol: Pi4ka
Name: phosphatidylinositol 4-kinase alpha
RGD ID: 621213
Description: Exhibits 1-phosphatidylinositol 4-kinase activity. Predicted to be involved in multi-organism membrane organization; phosphatidylinositol phosphorylation; and viral genome replication. Localizes to Golgi-associated vesicle membrane. Orthologous to human PI4KA (phosphatidylinositol 4-kinase alpha); PARTICIPATES IN inositol metabolic pathway; phosphoinositide metabolic pathway; inositol phosphate metabolic pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: leuserpin 2; phosphatidylinositol 4-kinase; phosphatidylinositol 4-kinase a; phosphatidylinositol 4-kinase, catalytic, alpha; phosphatidylinositol 4-kinase, catalytic, alpha polypeptide; PI4-kinase alpha; PI4K-alpha; Pik4ca; ptdIns-4-kinase alpha
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
mRatBN7.21183,609,136 - 83,726,876 (+)NCBI
Rnor_6.0 Ensembl1187,858,453 - 87,973,422 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01187,858,323 - 87,975,549 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01190,914,592 - 91,028,242 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,610,281 - 85,726,603 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11185,650,877 - 85,767,200 (+)NCBI
Celera1182,373,025 - 82,486,238 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:8286422   PMID:17131383   PMID:19211550   PMID:19376974   PMID:19946888   PMID:20458337   PMID:21423176   PMID:23229899   PMID:25327288   PMID:25468996   PMID:29476059   PMID:30053369  


Genomics

Comparative Map Data
Pi4ka
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21183,609,136 - 83,726,876 (+)NCBI
Rnor_6.0 Ensembl1187,858,453 - 87,973,422 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01187,858,323 - 87,975,549 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01190,914,592 - 91,028,242 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,610,281 - 85,726,603 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11185,650,877 - 85,767,200 (+)NCBI
Celera1182,373,025 - 82,486,238 (+)NCBICelera
Cytogenetic Map11q23NCBI
PI4KA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2220,707,691 - 20,859,417 (-)EnsemblGRCh38hg38GRCh38
GRCh382220,707,691 - 20,858,812 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372221,061,979 - 21,213,099 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362219,391,979 - 19,543,070 (-)NCBINCBI36hg18NCBI36
Build 342219,386,544 - 19,517,555NCBI
Celera225,492,598 - 5,494,284 (+)NCBI
Celera224,557,005 - 4,704,409 (-)NCBI
Cytogenetic Map22q11.21NCBI
HuRef224,329,838 - 4,481,241 (-)NCBIHuRef
CHM1_12221,062,151 - 21,213,286 (-)NCBICHM1_1
Pi4ka
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391617,098,215 - 17,224,178 (-)NCBIGRCm39mm39
GRCm39 Ensembl1617,098,215 - 17,224,178 (-)Ensembl
GRCm381617,280,351 - 17,406,314 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,280,351 - 17,406,314 (-)EnsemblGRCm38mm10GRCm38
MGSCv371617,280,444 - 17,406,407 (-)NCBIGRCm37mm9NCBIm37
MGSCv361617,193,915 - 17,319,877 (-)NCBImm8
Celera1617,853,225 - 17,979,271 (-)NCBICelera
Cytogenetic Map16A3NCBI
Pi4ka
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544219,446,955 - 19,598,725 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544219,446,955 - 19,594,790 (+)NCBIChiLan1.0ChiLan1.0
PI4KA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Mhudiblu_PPA_v0222,931,523 - 3,082,475 (-)NCBIMhudiblu_PPA_v0panPan3
PI4KA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2630,630,261 - 30,749,126 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12630,630,693 - 30,749,158 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Pi4ka
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366192,240,641 - 2,377,088 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PI4KA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1450,390,408 - 50,491,950 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11450,390,416 - 50,491,983 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,838,856 - 53,940,687 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PI4KA
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1194,648,184 - 4,797,573 (-)NCBI
ChlSab1.1 Ensembl194,648,183 - 4,797,396 (-)Ensembl
Pi4ka
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624945837,877 - 1,016,041 (+)NCBI

Position Markers
D11Wox17  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01187,924,191 - 87,924,358NCBIRnor6.0
Rnor_5.01190,979,890 - 90,980,057UniSTSRnor5.0
RGSC_v3.41185,677,091 - 85,677,258UniSTSRGSC3.4
Celera1182,438,485 - 82,438,652UniSTS
Cytogenetic Map11q23UniSTS
MHAa22f12.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01187,919,999 - 87,920,194NCBIRnor6.0
Rnor_5.01190,975,698 - 90,975,893UniSTSRnor5.0
RGSC_v3.41185,672,899 - 85,673,094UniSTSRGSC3.4
Celera1182,434,293 - 82,434,488UniSTS
Cytogenetic Map11q23UniSTS
RH130116  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01187,913,850 - 87,914,034NCBIRnor6.0
Rnor_5.01190,969,549 - 90,969,733UniSTSRnor5.0
RGSC_v3.41185,666,750 - 85,666,934UniSTSRGSC3.4
Celera1182,428,144 - 82,428,328UniSTS
RH 3.4 Map11722.22UniSTS
Cytogenetic Map11q23UniSTS
BE105289  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01187,927,573 - 87,927,778NCBIRnor6.0
Rnor_5.01190,983,040 - 90,983,245UniSTSRnor5.0
RGSC_v3.41185,680,918 - 85,681,123UniSTSRGSC3.4
Celera1182,441,976 - 82,442,181UniSTS
RH 3.4 Map11719.91UniSTS
Cytogenetic Map11q23UniSTS
MARC_2765-2766:991933387:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01187,971,383 - 87,971,700NCBIRnor6.0
Rnor_5.01191,026,203 - 91,026,520UniSTSRnor5.0
RGSC_v3.41185,724,564 - 85,724,881UniSTSRGSC3.4
Celera1182,484,199 - 82,484,516UniSTS
Cytogenetic Map11q23UniSTS
D3S1674  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01187,896,898 - 87,896,926NCBIRnor6.0
Rnor_6.0926,106,841 - 26,106,869NCBIRnor6.0
Rnor_5.01190,952,596 - 90,952,624UniSTSRnor5.0
Rnor_5.0924,967,829 - 24,967,857UniSTSRnor5.0
RGSC_v3.4918,768,932 - 18,768,960UniSTSRGSC3.4
RGSC_v3.41185,649,795 - 85,649,823UniSTSRGSC3.4
Celera1182,411,330 - 82,411,358UniSTS
Celera920,069,465 - 20,069,493UniSTS
Cytogenetic Map11q23UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111901627290463843Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115785881090463843Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115994302390463843Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116449467190463843Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116964970890463843Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:207
Count of miRNA genes:157
Interacting mature miRNAs:169
Transcripts:ENSRNOT00000065378
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 26 38 22 19 22 74 35 41 11
Low 17 19 19 19 8 11 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000091117   ⟹   ENSRNOP00000072265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1187,858,453 - 87,973,422 (+)Ensembl
RefSeq Acc Id: NM_022301   ⟹   NP_071637
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21183,609,136 - 83,724,080 (+)NCBI
Rnor_6.01187,858,453 - 87,973,422 (+)NCBI
Rnor_5.01190,914,592 - 91,028,242 (+)NCBI
RGSC_v3.41185,610,281 - 85,726,603 (+)RGD
Celera1182,373,025 - 82,486,238 (+)RGD
Sequence:
RefSeq Acc Id: XM_008768902   ⟹   XP_008767124
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21183,609,141 - 83,723,960 (+)NCBI
Rnor_6.01187,858,323 - 87,974,397 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001840421
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21183,609,202 - 83,726,876 (+)NCBI
Rnor_6.01187,858,323 - 87,975,549 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001840422
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21183,609,202 - 83,726,108 (+)NCBI
Rnor_6.01187,858,323 - 87,975,457 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_071637   ⟸   NM_022301
- Sequence:
RefSeq Acc Id: XP_008767124   ⟸   XM_008768902
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000072265   ⟸   ENSRNOT00000091117
Protein Domains
PI3K/PI4K   PIK helical

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621213 AgrOrtholog
Ensembl Genes ENSRNOG00000060045 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000072265 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000091117 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.1070.11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.70 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3/4_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3/4_kinase_cat_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3/4_kinase_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3K_accessory_dom UniProtKB/TrEMBL
  PI3K_accessory_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI_Kinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PInositide-3_kin_accessory_dom UniProtKB/Swiss-Prot
KEGG Report rno:64161 UniProtKB/Swiss-Prot
NCBI Gene 64161 ENTREZGENE
PANTHER PTHR10048 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PI3_PI4_kinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3Ka UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pi4ka PhenoGen
PROSITE PI3_4_KINASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3_4_KINASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3_4_KINASE_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PIK_HELICAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PI3Ka UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PI3Kc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A140TAJ5_RAT UniProtKB/TrEMBL
  O08662 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary A0A0G2K2J3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Pi4ka  phosphatidylinositol 4-kinase alpha  Pi4ka  phosphatidylinositol 4-kinase, catalytic, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-19 Pi4ka  phosphatidylinositol 4-kinase, catalytic, alpha  Pik4ca  phosphatidylinositol 4-kinase, catalytic, alpha polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Pik4ca  phosphatidylinositol 4-kinase, catalytic, alpha polypeptide    phosphatidylinositol 4-kinase  Name updated 1299863 APPROVED
2002-08-07 Pik4ca  phosphatidylinositol 4-kinase      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization associated with the membrane 633726
gene_domains contains ankyrin repeat domain, lipid kinase unique domain, pleckstrin homology domain, presumed lipid kinase/protein kinase homology domain, proline-rich region, and SH3 domain 633726
gene_expression expressed widely in the gray matter of the brain; enriched in the fetal brain 633726
gene_process may mediate neuronal differentiation and maturation including the synaptogenesis and synaptic plasticity 633726
gene_protein 2041 amino acids; 231.3 kDa 633726