Polr2e (RNA polymerase II, I and III subunit E) - Rat Genome Database

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Gene: Polr2e (RNA polymerase II, I and III subunit E) Rattus norvegicus
Analyze
Symbol: Polr2e
Name: RNA polymerase II, I and III subunit E
RGD ID: 1589817
Description: Predicted to enable DNA binding activity. Predicted to contribute to DNA-directed 5'-3' RNA polymerase activity. Predicted to be involved in transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of RPAP3/R2TP/prefoldin-like complex and nuclear DNA-directed RNA polymerase complex. Orthologous to human POLR2E (RNA polymerase II, I and III subunit E); PARTICIPATES IN RNA polymerase I transcription pathway; RNA polymerase II transcription pathway; RNA polymerase III transcription pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dibromophenyl 2,4,5-tribromophenyl ether; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DNA-directed RNA polymerase II subunit E; DNA-directed RNA polymerases I, II, and III subunit RPABC1; LOC690966; polymerase (RNA) II (DNA directed) polypeptide E; polymerase (RNA) II (DNA directed) polypeptide E, 25kDa; polymerase (RNA) II subunit E; RNA polymerase II subunit E; RNA polymerases I, II, and III subunit ABC1; RPB5; RPB5 homolog; similar to DNA-directed RNA polymerase II 23 kDa polypeptide (RPB25) (RPB5) (RPABC1)
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
mRatBN7.279,666,695 - 9,670,638 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl79,666,716 - 9,670,643 (+)Ensembl
Rnor_6.0712,532,785 - 12,536,797 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,532,895 - 12,536,791 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,702,927 - 12,706,900 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,179,283 - 11,183,205 (+)NCBIRGSC3.4rn4RGSC3.4
Celera77,842,509 - 7,846,431 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9268387   PMID:9852112   PMID:12477932  


Genomics

Comparative Map Data
Polr2e
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.279,666,695 - 9,670,638 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl79,666,716 - 9,670,643 (+)Ensembl
Rnor_6.0712,532,785 - 12,536,797 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,532,895 - 12,536,791 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,702,927 - 12,706,900 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,179,283 - 11,183,205 (+)NCBIRGSC3.4rn4RGSC3.4
Celera77,842,509 - 7,846,431 (+)NCBICelera
Cytogenetic Map7q11NCBI
POLR2E
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38191,086,574 - 1,095,375 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl191,086,574 - 1,095,380 (-)EnsemblGRCh38hg38GRCh38
GRCh37191,086,573 - 1,095,374 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36191,039,163 - 1,046,336 (-)NCBINCBI36hg18NCBI36
Build 34191,039,165 - 1,046,336NCBI
Celera191,019,553 - 1,028,363 (-)NCBI
Cytogenetic Map19p13.3NCBI
HuRef19860,059 - 868,869 (-)NCBIHuRef
CHM1_1191,086,181 - 1,094,986 (-)NCBICHM1_1
T2T-CHM13v2.0191,051,240 - 1,060,040 (-)NCBI
Polr2e
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391079,871,787 - 79,875,493 (-)NCBIGRCm39mm39
GRCm39 Ensembl1079,871,783 - 79,875,629 (-)Ensembl
GRCm381080,035,953 - 80,039,659 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,035,949 - 80,039,795 (-)EnsemblGRCm38mm10GRCm38
MGSCv371079,498,698 - 79,502,404 (-)NCBIGRCm37mm9NCBIm37
MGSCv361079,439,639 - 79,442,869 (-)NCBImm8
Celera1081,050,761 - 81,054,467 (-)NCBICelera
Cytogenetic Map10C1NCBI
Polr2e
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554956,779,557 - 6,788,241 (+)NCBIChiLan1.0ChiLan1.0
POLR2E
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1191,063,296 - 1,073,379 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl191,065,421 - 1,073,379 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01932,263 - 41,992 (+)NCBIMhudiblu_PPA_v0panPan3
POLR2E
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12057,649,836 - 57,653,661 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2057,649,868 - 57,654,199 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2057,452,042 - 57,455,856 (+)NCBI
ROS_Cfam_1.02058,391,944 - 58,395,762 (+)NCBI
ROS_Cfam_1.0 Ensembl2058,392,009 - 58,395,762 (+)Ensembl
UMICH_Zoey_3.12057,447,255 - 57,451,066 (+)NCBI
UNSW_CanFamBas_1.02057,926,783 - 57,930,597 (+)NCBI
UU_Cfam_GSD_1.02058,129,830 - 58,133,647 (+)NCBI
Polr2e
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,335,308 - 217,340,338 (+)NCBI
SpeTri2.0NW_004936588494,445 - 499,659 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POLR2E
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl277,330,686 - 77,341,903 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1277,330,755 - 77,341,910 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2277,655,741 - 77,666,891 (-)NCBISscrofa10.2Sscrofa10.2susScr3
POLR2E
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.16844,196 - 856,127 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl6841,615 - 855,214 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660818,003,368 - 8,013,758 (+)NCBIVero_WHO_p1.0
Polr2e
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248287,547,460 - 7,553,282 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248287,547,401 - 7,553,282 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH127647  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,670,334 - 9,670,546 (+)MAPPERmRatBN7.2
Rnor_6.0712,536,494 - 12,536,705NCBIRnor6.0
Rnor_5.0712,706,597 - 12,706,808UniSTSRnor5.0
RGSC_v3.4711,182,902 - 11,183,113UniSTSRGSC3.4
Celera77,846,128 - 7,846,339UniSTS
RH 3.4 Map725.6UniSTS
Cytogenetic Map7q11UniSTS
RH130774  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,667,001 - 9,667,191 (+)MAPPERmRatBN7.2
Rnor_6.0712,533,161 - 12,533,350NCBIRnor6.0
Rnor_5.0712,703,264 - 12,703,453UniSTSRnor5.0
RGSC_v3.4711,179,569 - 11,179,758UniSTSRGSC3.4
Celera77,842,795 - 7,842,984UniSTS
RH 3.4 Map725.6UniSTS
Cytogenetic Map7q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:201
Count of miRNA genes:139
Interacting mature miRNAs:146
Transcripts:ENSRNOT00000018169
Prediction methods:Microtar, Miranda, 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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018169   ⟹   ENSRNOP00000018169
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,666,716 - 9,670,643 (+)Ensembl
Rnor_6.0 Ensembl712,532,895 - 12,536,791 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093135   ⟹   ENSRNOP00000076102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,535,527 - 12,536,404 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093413   ⟹   ENSRNOP00000076239
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,666,742 - 9,670,637 (+)Ensembl
Rnor_6.0 Ensembl712,532,945 - 12,536,791 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093599   ⟹   ENSRNOP00000076166
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,666,773 - 9,670,625 (+)Ensembl
Rnor_6.0 Ensembl712,532,941 - 12,536,791 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093703   ⟹   ENSRNOP00000076293
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,536,189 - 12,536,791 (+)Ensembl
RefSeq Acc Id: NM_001109614   ⟹   NP_001103084
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,666,716 - 9,670,638 (+)NCBI
Rnor_6.0712,532,875 - 12,536,797 (+)NCBI
Rnor_5.0712,702,927 - 12,706,900 (+)NCBI
RGSC_v3.4711,179,283 - 11,183,205 (+)RGD
Celera77,842,509 - 7,846,431 (+)RGD
Sequence:
RefSeq Acc Id: XM_006241009   ⟹   XP_006241071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,666,695 - 9,670,231 (+)NCBI
Rnor_6.0712,532,785 - 12,536,390 (+)NCBI
Rnor_5.0712,702,927 - 12,706,900 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241010   ⟹   XP_006241072
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,666,739 - 9,670,231 (+)NCBI
Rnor_6.0712,532,968 - 12,536,390 (+)NCBI
Rnor_5.0712,702,927 - 12,706,900 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006241011   ⟹   XP_006241073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,666,744 - 9,670,636 (+)NCBI
Rnor_6.0712,532,941 - 12,536,795 (+)NCBI
Rnor_5.0712,702,927 - 12,706,900 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079930   ⟹   XP_038935858
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,666,695 - 9,670,636 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001103084   ⟸   NM_001109614
- UniProtKB: B0BNE2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006241071   ⟸   XM_006241009
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006241073   ⟸   XM_006241011
- Peptide Label: isoform X4
- UniProtKB: A0A1W2Q690 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241072   ⟸   XM_006241010
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000018169   ⟸   ENSRNOT00000018169
RefSeq Acc Id: ENSRNOP00000076166   ⟸   ENSRNOT00000093599
RefSeq Acc Id: ENSRNOP00000076293   ⟸   ENSRNOT00000093703
RefSeq Acc Id: ENSRNOP00000076239   ⟸   ENSRNOT00000093413
RefSeq Acc Id: ENSRNOP00000076102   ⟸   ENSRNOT00000093135
RefSeq Acc Id: XP_038935858   ⟸   XM_039079930
- Peptide Label: isoform X3
Protein Domains
RNA_pol_Rpb5_C   RNA_pol_Rpb5_N

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B0BNE2-F1-model_v2 AlphaFold B0BNE2 1-210 view protein structure

Transcriptome

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

Promoters
RGD ID:13695038
Promoter ID:EPDNEW_R5563
Type:initiation region
Name:Polr2e_1
Description:RNA polymerase II subunit E
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_6.0712,532,897 - 12,532,957EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
BUF/N (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/Stm (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
GK/FarMcwi (2019)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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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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
LEW/Crl (2019)
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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
LEXF10A/StmMcwi (2020)
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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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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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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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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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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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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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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/MavRrrcAek (2020)
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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/MavRrrcAek (2020)
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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/MavRrrcAek (2020)
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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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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/NRrrcMcwi (2019)
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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
MR/N (2020)
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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
MWF/Hsd (2019)
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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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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
SHR/OlalpcvMcwi (2019)
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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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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
SR/JrHsd (2020)
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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
SS/JrHsdMcwi (2019)
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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
WAG/RijCrl (2020)
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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/N (2020)
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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/NCrl (2019)
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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
WN/N (2020)
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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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 12703084 12703085 T G snv ACI/EurMcwi (MCW), SR/JrHsd (MCW), FHH/EurMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 11179389 11179390 T G snv ACI/EurMcwi (MCW), SR/JrHsd (MCW), FHH/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589817 AgrOrtholog
BioCyc Gene G2FUF-34913 BioCyc
Ensembl Genes ENSRNOG00000013545 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000018169 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000076102 UniProtKB/TrEMBL
  ENSRNOP00000076166 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000076239 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000018169 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000093135 UniProtKB/TrEMBL
  ENSRNOT00000093413 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000093599 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.1340.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.940.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7304442 IMAGE-MGC_LOAD
InterPro DNA_RNA_pol_RPB5_euk/virus UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA_pol_Rpb5_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA_pol_Rpb5_N_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA_pol_subH/Rpb5_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA_pol_subH/Rpb5_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rpb5-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RPB5-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RpoH/RPB5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:690966 UniProtKB/Swiss-Prot
MGC_CLONE MGC:188150 IMAGE-MGC_LOAD
NCBI Gene 690966 ENTREZGENE
PANTHER PTHR10535 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam RNA_pol_Rpb5_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA_pol_Rpb5_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Polr2e PhenoGen
PIRSF RPB5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RNA_POL_H_23KD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53036 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55287 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A1W2Q620_RAT UniProtKB/TrEMBL
  A0A1W2Q690 ENTREZGENE, UniProtKB/TrEMBL
  B0BNE2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-06-22 Polr2e  RNA polymerase II, I and III subunit E  Polr2e  RNA polymerase II subunit E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-07-21 Polr2e  RNA polymerase II subunit E  Polr2e  polymerase (RNA) II subunit E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-03-16 Polr2e  polymerase (RNA) II subunit E  Polr2e  polymerase (RNA) II (DNA directed) polypeptide E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-05-24 Polr2e  polymerase (RNA) II (DNA directed) polypeptide E  LOC687055  similar to DNA-directed RNA polymerase II 23 kDa polypeptide (RPB25) (RPB5) (RPABC1)  Data Merged 1643240 APPROVED
2009-10-22 Polr2e  polymerase (RNA) II (DNA directed) polypeptide E  Polr2e  polymerase (RNA) II (DNA directed) polypeptide E, 25kDa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Polr2e  polymerase (RNA) II (DNA directed) polypeptide E, 25kDa  Polr2e  polymerase (RNA) II (DNA directed) polypeptide E  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Polr2e  polymerase (RNA) II (DNA directed) polypeptide E  LOC690966  similar to DNA-directed RNA polymerase II 23 kDa polypeptide (RPB25) (RPB5) (RPABC1)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC690966  similar to DNA-directed RNA polymerase II 23 kDa polypeptide (RPB25) (RPB5) (RPABC1)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-20 LOC687055  similar to DNA-directed RNA polymerase II 23 kDa polypeptide (RPB25) (RPB5) (RPABC1)      Symbol and Name status set to provisional 70820 PROVISIONAL