Pola1 (DNA polymerase alpha 1, catalytic subunit) - Rat Genome Database
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Gene: Pola1 (DNA polymerase alpha 1, catalytic subunit) Rattus norvegicus
Analyze
Symbol: Pola1
Name: DNA polymerase alpha 1, catalytic subunit
RGD ID: 621816
Description: Exhibits DNA-directed DNA polymerase activity; double-stranded DNA binding activity; and nucleotide binding activity. Involved in DNA biosynthetic process and DNA replication. Localizes to alpha DNA polymerase:primase complex. Predicted to colocalize with chromatin. Human ortholog(s) of this gene implicated in Van Esch-O'Driscoll syndrome and X-linked reticulate pigmentary disorder. Orthologous to human POLA1 (DNA polymerase alpha 1, catalytic subunit); PARTICIPATES IN DNA replication pathway; purine metabolic pathway; pyrimidine metabolic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; aphidicolin.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: DNA polymerase alpha catalytic subunit; DNA polymerase alpha catalytic subunit p180; DNA polymerase alpha subunit I; polymerase (DNA directed), alpha 1; polymerase (DNA directed), alpha 1, catalytic subunit; polymerase (DNA) alpha 1, catalytic subunit
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
mRatBN7.2X58,034,617 - 58,348,612 (-)NCBI
Rnor_6.0 EnsemblX62,382,608 - 62,698,830 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X62,382,604 - 62,698,830 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X62,976,409 - 63,270,153 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0X63,279,367 - 63,291,732 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X80,650,454 - 80,965,833 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X80,724,688 - 81,039,135 (-)NCBI
CeleraX58,474,102 - 58,787,051 (-)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
1,1-dichloroethene  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-nitropyrene  (ISO)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-diaminotoluene  (ISO)
2-methylcholine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
aflatoxin B1  (ISO)
amphetamine  (EXP)
antirheumatic drug  (ISO)
aphidicolin  (EXP,ISO)
atrazine  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlorpromazine  (ISO)
choline  (ISO)
chromium(6+)  (EXP,ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diethylstilbestrol  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
Enterolactone  (ISO)
folic acid  (ISO)
geraniol  (ISO)
indometacin  (ISO)
irinotecan  (EXP,ISO)
iron(III) nitrilotriacetate  (EXP)
ketamine  (EXP)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
methylseleninic acid  (ISO)
N-nitrosodiethylamine  (ISO)
N-Nitrosopyrrolidine  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
PCB138  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
potassium chromate  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
sodium dichromate  (EXP)
succimer  (ISO)
tetrachloromethane  (EXP,ISO)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP)
Tributyltin oxide  (ISO)
trimellitic anhydride  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vincristine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
alpha DNA polymerase:primase complex  (IBA,IC,IDA,IEA,ISO,ISS)
chromatin  (ISO,ISS)
cytosol  (IEA,ISO,ISS)
nuclear envelope  (ISO,ISS)
nuclear matrix  (ISO,ISS)
nucleolus  (ISO,ISS)
nucleoplasm  (IEA,ISO,ISS)
nucleus  (IEA,ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:893425   PMID:1508673   PMID:1730053   PMID:1903085   PMID:2175912   PMID:3139084   PMID:3335506   PMID:3359994   PMID:3917431   PMID:4084590   PMID:7045121   PMID:7910375  
PMID:8106564   PMID:8125989   PMID:8889548   PMID:9506968   PMID:9518481   PMID:9584195   PMID:9815285   PMID:10541966   PMID:11470886   PMID:15615704   PMID:16762037   PMID:22465957  
PMID:27019227   PMID:31006512  


Genomics

Comparative Map Data
Pola1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X58,034,617 - 58,348,612 (-)NCBI
Rnor_6.0 EnsemblX62,382,608 - 62,698,830 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X62,382,604 - 62,698,830 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X62,976,409 - 63,270,153 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0X63,279,367 - 63,291,732 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X80,650,454 - 80,965,833 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X80,724,688 - 81,039,135 (-)NCBI
CeleraX58,474,102 - 58,787,051 (-)NCBICelera
Cytogenetic MapXq22NCBI
POLA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX24,693,873 - 24,996,986 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 EnsemblX24,693,909 - 24,996,986 (+)EnsemblGRCh38hg38GRCh38
GRCh38X24,693,877 - 24,996,986 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X24,712,038 - 25,015,103 (+)NCBIGRCh37GRCh37hg19GRCh37
GRCh37X24,712,035 - 25,015,103 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X24,621,977 - 24,925,024 (+)NCBINCBI36hg18NCBI36
Build 34X24,471,720 - 24,774,757NCBI
CeleraX28,834,936 - 29,139,042 (+)NCBI
Cytogenetic MapXp22.11-p21.3NCBI
HuRefX22,454,314 - 22,756,924 (+)NCBIHuRef
CHM1_1X24,743,660 - 25,046,638 (+)NCBICHM1_1
Pola1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X92,348,372 - 92,675,993 (-)NCBIGRCm39mm39
GRCm38X93,304,766 - 93,632,387 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX93,304,767 - 93,632,155 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X90,550,105 - 90,877,494 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X89,557,486 - 89,884,874 (-)NCBImm8
CeleraX80,226,588 - 80,553,952 (-)NCBICelera
Cytogenetic MapXC3NCBI
cM MapX41.06NCBI
Pola1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555095,007,182 - 5,319,894 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555095,007,385 - 5,319,683 (+)NCBIChiLan1.0ChiLan1.0
POLA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X24,657,810 - 24,958,599 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX24,657,878 - 24,960,231 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X17,290,805 - 17,592,163 (+)NCBIMhudiblu_PPA_v0panPan3
POLA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 EnsemblX20,227,886 - 20,537,902 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1X20,227,808 - 20,537,893 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Pola1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049368361,151 - 287,438 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX20,756,201 - 21,102,061 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X20,756,674 - 21,064,265 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
POLA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X23,184,921 - 23,492,836 (+)NCBI
ChlSab1.1 EnsemblX23,185,046 - 23,492,992 (+)Ensembl
Pola1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624897969,431 - 1,272,762 (+)NCBI

Position Markers
RH132880  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0X62,382,875 - 62,383,070NCBIRnor6.0
Rnor_5.0X62,976,680 - 62,976,875UniSTSRnor5.0
RGSC_v3.4X80,650,725 - 80,650,920UniSTSRGSC3.4
CeleraX58,474,373 - 58,474,568UniSTS
Cytogenetic MapXq22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X15688119127888215Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1815335263153352Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X44320616158345622Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX44557974120045269Rat
70221Bp56Blood pressure QTL 564.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X6139809770352120Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:562
Count of miRNA genes:273
Interacting mature miRNAs:331
Transcripts:ENSRNOT00000018147
Prediction methods:Microtar, Miranda, Pita, Rnahybrid
Result types:miRGate_prediction

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

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


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 22 28 18 17 18 33 20 32 8
Low 2 21 29 23 2 23 8 10 41 15 7 3 8
Below cutoff 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018147   ⟹   ENSRNOP00000018147
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX62,491,491 - 62,690,806 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075997   ⟹   ENSRNOP00000068341
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX62,382,608 - 62,661,152 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076359   ⟹   ENSRNOP00000068175
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX62,664,787 - 62,698,830 (-)Ensembl
RefSeq Acc Id: NM_053479   ⟹   NP_445931
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X58,034,617 - 58,348,512 (-)NCBI
Rnor_6.0X62,382,604 - 62,698,830 (-)NCBI
Rnor_5.0X62,976,409 - 63,270,153 (-)NCBI
Rnor_5.0X63,279,367 - 63,291,732 (-)NCBI
CeleraX58,474,102 - 58,787,051 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039100121   ⟹   XP_038956049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X58,223,177 - 58,348,612 (-)NCBI
RefSeq Acc Id: XM_039100122   ⟹   XP_038956050
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X58,290,945 - 58,348,612 (-)NCBI
Protein Sequences
Protein RefSeqs NP_445931 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956049 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956050 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA09720 (Get FASTA)   NCBI Sequence Viewer  
  EDL96016 (Get FASTA)   NCBI Sequence Viewer  
  O89042 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_445931   ⟸   NM_053479
- UniProtKB: O89042 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018147   ⟸   ENSRNOT00000018147
RefSeq Acc Id: ENSRNOP00000068341   ⟸   ENSRNOT00000075997
RefSeq Acc Id: ENSRNOP00000068175   ⟸   ENSRNOT00000076359
RefSeq Acc Id: XP_038956049   ⟸   XM_039100121
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038956050   ⟸   XM_039100122
- Peptide Label: isoform X2
Transcriptome

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

Promoters
RGD ID:13701838
Promoter ID:EPDNEW_R12361
Type:multiple initiation site
Name:Pola1_1
Description:DNA polymerase alpha 1, catalytic subunit
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_6.0X62,698,833 - 62,698,893EPDNEW

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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621816 AgrOrtholog
Ensembl Genes ENSRNOG00000013322 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000018147 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000068175 UniProtKB/TrEMBL
  ENSRNOP00000068341 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018147 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000075997 UniProtKB/TrEMBL
  ENSRNOT00000076359 UniProtKB/TrEMBL
Gene3D-CATH 1.10.132.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.10.3200.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.420.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.1600.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DNA-dir_DNA_pol_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA-dir_DNA_pol_B_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA-dir_DNA_pol_B_exonuc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA-dir_DNA_pol_B_multi_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA/RNA_pol_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA_pol_a_cat_su_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA_pol_B_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA_pol_palm_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pol_alpha_znc_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNaseH-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNaseH_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_DNA-dir_DNA_pol_B_alpha UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:85241 UniProtKB/Swiss-Prot
NCBI Gene 85241 ENTREZGENE
Pfam DNA_pol_alpha_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA_pol_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA_pol_B_exo1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-DNA_Pol UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pola1 PhenoGen
PRINTS DNAPOLB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE DNA_POLYMERASE_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART POLBc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53098 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56672 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096MJL5_RAT UniProtKB/TrEMBL
  A0A096MK13_RAT UniProtKB/TrEMBL
  DPOLA_RAT UniProtKB/Swiss-Prot
  F1LRJ6_RAT UniProtKB/TrEMBL
  O89042 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-21 Pola1  DNA polymerase alpha 1, catalytic subunit  Pola1  polymerase (DNA) alpha 1, catalytic subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-03-16 Pola1  polymerase (DNA) alpha 1, catalytic subunit  Pola1  polymerase (DNA directed), alpha 1, catalytic subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-10 Pola1  polymerase (DNA directed), alpha 1, catalytic subunit  Pola1  polymerase (DNA directed), alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Pola1  polymerase (DNA directed), alpha 1    DNA polymerase alpha subunit I  Name updated 1299863 APPROVED
2002-08-07 Pola1  DNA polymerase alpha subunit I      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression activity present in liver 724599