Top2b (DNA topoisomerase II beta) - Rat Genome Database
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Gene: Top2b (DNA topoisomerase II beta) Rattus norvegicus
Analyze
Symbol: Top2b
Name: DNA topoisomerase II beta
RGD ID: 1586156
Description: Exhibits ribonucleoprotein complex binding activity. Involved in several processes, including cellular response to ATP; cellular response to hydrogen peroxide; and positive regulation of double-strand break repair via nonhomologous end joining. Localizes to nucleolus. Predicted to colocalize with heterochromatin. Orthologous to human TOP2B (DNA topoisomerase II beta); PARTICIPATES IN doxorubicin pharmacodynamics pathway; doxorubicin response pathway; etoposide pharmacodynamics pathway; INTERACTS WITH (+)-dexrazoxane; all-trans-retinoic acid; amphetamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: DNA topoisomerase 2-beta; LOC361100; similar to topoisomerase (DNA) II beta; topoisomerase (DNA) II beta; topoisomerase II beta
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
mRatBN7.2159,051,661 - 9,111,220 (-)NCBI
Rnor_6.0 Ensembl1510,262,651 - 10,320,233 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01510,262,972 - 10,319,741 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01514,308,369 - 14,366,373 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera159,095,127 - 9,153,091 (-)NCBICelera
Cytogenetic Map15p16NCBI
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
(+)-dexrazoxane  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
acetaldehyde  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aflatoxin M1  (ISO)
all-trans-retinoic acid  (EXP,ISO)
alternariol  (ISO)
amphetamine  (EXP)
amsacrine  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP)
bortezomib  (EXP)
cadmium dichloride  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
crocidolite asbestos  (ISO)
Cryptotanshinone  (ISO)
curcumin  (ISO)
dehydroepiandrosterone  (EXP)
deoxynivalenol  (ISO)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
dioxygen  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ellipticine  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
etoposide  (ISO)
flusilazole  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
glafenine  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
m-xylene  (EXP)
menadione  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
miconazole  (ISO)
oxaliplatin  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
quercetin  (EXP,ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
razoxane  (EXP,ISO)
resveratrol  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
SB 431542  (ISO)
sodium dichromate  (EXP)
tamibarotene  (ISO)
tetrachloroethene  (ISO)
topotecan  (EXP)
Tributyltin oxide  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8395528   PMID:9049244   PMID:9224616   PMID:10473615   PMID:10615047   PMID:10666337   PMID:10684600   PMID:11062478   PMID:11106659   PMID:11136718   PMID:11835579   PMID:12773624  
PMID:15607978   PMID:16611985   PMID:16712776   PMID:16973621   PMID:17567603   PMID:19116664   PMID:22082260   PMID:22433436   PMID:24116135   PMID:30930055  


Genomics

Comparative Map Data
Top2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2159,051,661 - 9,111,220 (-)NCBI
Rnor_6.0 Ensembl1510,262,651 - 10,320,233 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01510,262,972 - 10,319,741 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01514,308,369 - 14,366,373 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera159,095,127 - 9,153,091 (-)NCBICelera
Cytogenetic Map15p16NCBI
TOP2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl325,597,905 - 25,664,907 (-)EnsemblGRCh38hg38GRCh38
GRCh38325,597,905 - 25,664,907 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37325,639,396 - 25,706,398 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37325,639,396 - 25,706,396 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36325,614,479 - 25,680,792 (-)NCBINCBI36hg18NCBI36
Build 34325,614,478 - 25,680,792NCBI
Celera325,576,353 - 25,642,666 (-)NCBI
Cytogenetic Map3p24.2NCBI
HuRef325,584,872 - 25,651,422 (-)NCBIHuRef
CHM1_1325,589,386 - 25,655,854 (-)NCBICHM1_1
Top2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39146,038,976 - 6,104,557 (-)NCBIGRCm39mm39
GRCm381416,365,206 - 16,430,787 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1416,365,179 - 16,435,462 (+)EnsemblGRCm38mm10GRCm38
MGSCv371417,197,720 - 17,263,301 (+)NCBIGRCm37mm9NCBIm37
MGSCv361415,158,473 - 15,224,054 (+)NCBImm8
Celera1412,058,636 - 12,125,106 (+)NCBICelera
Cytogenetic Map14A1NCBI
Top2b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543017,457,603 - 17,507,012 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543017,457,603 - 17,523,115 (-)NCBIChiLan1.0ChiLan1.0
TOP2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1325,830,424 - 25,877,870 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl325,828,879 - 25,896,912 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0325,499,239 - 25,566,029 (-)NCBIMhudiblu_PPA_v0panPan3
TOP2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2318,146,095 - 18,206,287 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12318,159,521 - 18,206,413 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Top2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647317,146,576 - 17,189,589 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TOP2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1312,507,138 - 12,575,583 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11312,507,738 - 12,575,042 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21314,119,707 - 14,187,251 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TOP2B
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11570,266,267 - 70,332,079 (-)NCBI
ChlSab1.1 Ensembl1570,266,601 - 70,332,824 (-)Ensembl
Top2b
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247883,493,188 - 3,590,138 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300142Bp191Blood pressure QTL 1913.14arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)15112800829Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15130597196Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15137708474Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15137708474Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15137708474Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15110589015828368Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)colorectal tumor number (CMO:0001794)15232787726288802Rat
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15232787726288802Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:91
Count of miRNA genes:73
Interacting mature miRNAs:76
Transcripts:ENSRNOT00000075125
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 41 48 32 19 32 8 8 74 35 38 11 8
Low 2 9 9 9 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075125
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1510,262,972 - 10,319,741 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075896
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1510,287,371 - 10,291,644 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076520
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1510,262,651 - 10,274,950 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1510,292,922 - 10,320,233 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000076754
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1510,280,895 - 10,281,963 (-)Ensembl
RefSeq Acc Id: NM_001100858   ⟹   NP_001094328
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2159,051,661 - 9,111,220 (-)NCBI
Rnor_6.01510,262,972 - 10,319,741 (-)NCBI
Rnor_5.01514,308,369 - 14,366,373 (-)NCBI
Celera159,095,127 - 9,153,091 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001094328 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA03133 (Get FASTA)   NCBI Sequence Viewer  
  BAE96971 (Get FASTA)   NCBI Sequence Viewer  
  EDL94093 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001094328   ⟸   NM_001100858
- UniProtKB: Q14TE9 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
TOP4c   Toprim

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)
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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)
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)
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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)
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)
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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)
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:1586156 AgrOrtholog
Ensembl Genes ENSRNOG00000048795 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000075125 ENTREZGENE
Gene3D-CATH 1.10.268.10 UniProtKB/TrEMBL
  3.30.230.10 UniProtKB/TrEMBL
  3.30.565.10 UniProtKB/TrEMBL
  3.40.50.670 UniProtKB/TrEMBL
  3.90.199.10 UniProtKB/TrEMBL
InterPro ATPase-like_ATP-bd UniProtKB/TrEMBL
  DTHCT UniProtKB/TrEMBL
  HATPase_C_sf UniProtKB/TrEMBL
  Ribosomal_S5_D2-typ_fold UniProtKB/TrEMBL
  Ribosomal_S5_D2-typ_fold_subgr UniProtKB/TrEMBL
  Top2b UniProtKB/TrEMBL
  Topo_IIA UniProtKB/TrEMBL
  Topo_IIA_A/C UniProtKB/TrEMBL
  Topo_IIA_A/C_ab UniProtKB/TrEMBL
  Topo_IIA_A_a UniProtKB/TrEMBL
  Topo_IIA_bsu_dom2 UniProtKB/TrEMBL
  Topo_IIA_cen UniProtKB/TrEMBL
  Topo_IIA_cen_dom UniProtKB/TrEMBL
  TopoIIA_CS UniProtKB/TrEMBL
  TOPRIM_C UniProtKB/TrEMBL
  Toprim_domain UniProtKB/TrEMBL
  TOPRIM_TopoII UniProtKB/TrEMBL
KEGG Report rno:361100 UniProtKB/TrEMBL
NCBI Gene 361100 ENTREZGENE
PANTHER PTHR10169:SF36 UniProtKB/TrEMBL
Pfam DNA_gyraseB UniProtKB/TrEMBL
  DNA_topoisoIV UniProtKB/TrEMBL
  DTHCT UniProtKB/TrEMBL
  HATPase_c UniProtKB/TrEMBL
  Toprim UniProtKB/TrEMBL
  TOPRIM_C UniProtKB/TrEMBL
PhenoGen Top2b PhenoGen
PROSITE TOPOISOMERASE_II UniProtKB/TrEMBL
  TOPRIM UniProtKB/TrEMBL
SMART TOP2c UniProtKB/TrEMBL
  TOP4c UniProtKB/TrEMBL
Superfamily-SCOP ATP_bd_ATPase UniProtKB/TrEMBL
  Ribosomal_S5_D2-typ_fold UniProtKB/TrEMBL
  Topo_IIA_cen UniProtKB/TrEMBL
UniProt Q14TE9 ENTREZGENE, UniProtKB/TrEMBL
  Q63177_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-16 Top2b  DNA topoisomerase II beta  Top2b  topoisomerase (DNA) II beta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-12-09 Top2b  topoisomerase (DNA) II beta  LOC361100  similar to topoisomerase (DNA) II beta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC361100  similar to topoisomerase (DNA) II beta      Symbol and Name status set to provisional 70820 PROVISIONAL