Topbp1 (DNA topoisomerase II binding protein 1) - Rat Genome Database

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Gene: Topbp1 (DNA topoisomerase II binding protein 1) Rattus norvegicus
Analyze
Symbol: Topbp1
Name: DNA topoisomerase II binding protein 1
RGD ID: 1562949
Description: Predicted to enable identical protein binding activity. Predicted to be involved in DNA replication initiation; mitotic G2/M transition checkpoint; and response to ionizing radiation. Predicted to be located in actin cytoskeleton; nucleus; and plasma membrane. Predicted to be part of BRCA1-B complex. Orthologous to human TOPBP1 (DNA topoisomerase II binding protein 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA topoisomerase 2-binding protein 1; LOC315969; RGD1562949; similar to mKIAA0259 protein; topoisomerase (DNA) II beta binding protein; topoisomerase (DNA) II binding protein 1
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
mRatBN7.28103,887,805 - 103,931,662 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl8103,887,865 - 103,931,674 (+)Ensembl
Rnor_6.08111,790,655 - 111,835,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8111,790,678 - 111,827,151 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08111,182,214 - 111,226,726 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48108,316,569 - 108,360,753 (+)NCBIRGSC3.4rn4RGSC3.4
Celera8103,263,981 - 103,308,109 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12773567   PMID:14718568   PMID:17006541   PMID:17696610   PMID:21659603   PMID:22549958   PMID:31904090  


Genomics

Comparative Map Data
Topbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28103,887,805 - 103,931,662 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl8103,887,865 - 103,931,674 (+)Ensembl
Rnor_6.08111,790,655 - 111,835,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8111,790,678 - 111,827,151 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08111,182,214 - 111,226,726 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48108,316,569 - 108,360,753 (+)NCBIRGSC3.4rn4RGSC3.4
Celera8103,263,981 - 103,308,109 (+)NCBICelera
Cytogenetic Map8q32NCBI
TOPBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383133,600,238 - 133,661,941 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl3133,598,175 - 133,662,380 (-)EnsemblGRCh38hg38GRCh38
GRCh373133,319,082 - 133,380,785 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363134,802,177 - 134,863,380 (-)NCBINCBI36hg18NCBI36
Build 343134,802,184 - 134,863,388NCBI
Celera3131,746,550 - 131,807,847 (-)NCBI
Cytogenetic Map3q22.1NCBI
HuRef3130,698,929 - 130,760,396 (-)NCBIHuRef
CHM1_13133,282,831 - 133,344,118 (-)NCBICHM1_1
T2T-CHM13v2.03136,345,391 - 136,407,104 (-)NCBI
Topbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399103,182,351 - 103,227,627 (+)NCBIGRCm39mm39
GRCm39 Ensembl9103,182,414 - 103,227,627 (+)Ensembl
GRCm389103,305,167 - 103,350,428 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9103,305,215 - 103,350,428 (+)EnsemblGRCm38mm10GRCm38
MGSCv379103,207,657 - 103,252,758 (+)NCBIGRCm37mm9NCBIm37
MGSCv369103,163,477 - 103,208,578 (+)NCBImm8
Celera9102,854,061 - 102,901,479 (+)NCBICelera
Cytogenetic Map9F1NCBI
Topbp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555014,908,137 - 4,976,453 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555014,907,687 - 4,974,995 (+)NCBIChiLan1.0ChiLan1.0
TOPBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13138,143,287 - 138,204,163 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3138,143,893 - 138,203,363 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03130,667,998 - 130,729,569 (-)NCBIMhudiblu_PPA_v0panPan3
TOPBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12330,517,172 - 30,578,664 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2330,516,125 - 30,578,108 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2330,496,150 - 30,557,663 (-)NCBI
ROS_Cfam_1.02331,036,921 - 31,098,677 (-)NCBI
ROS_Cfam_1.0 Ensembl2331,037,038 - 31,098,765 (-)Ensembl
UMICH_Zoey_3.12330,730,992 - 30,792,698 (-)NCBI
UNSW_CanFamBas_1.02330,788,792 - 30,850,532 (-)NCBI
UU_Cfam_GSD_1.02331,036,365 - 31,098,102 (-)NCBI
Topbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560270,028,281 - 70,081,249 (-)NCBI
SpeTri2.0NW_0049365296,788,713 - 6,841,824 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TOPBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1374,768,257 - 74,846,340 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11374,768,251 - 74,846,377 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21382,197,685 - 82,230,216 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TOPBP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11556,679,333 - 56,740,773 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1556,679,426 - 56,741,566 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604129,662,936 - 29,724,640 (+)NCBIVero_WHO_p1.0
Topbp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247309,914,140 - 9,994,775 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247309,916,717 - 9,994,666 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D8Rat107  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28103,897,218 - 103,897,433 (+)MAPPERmRatBN7.2
Rnor_6.08111,800,214 - 111,800,427NCBIRnor6.0
Rnor_5.08111,191,793 - 111,192,006UniSTSRnor5.0
RGSC_v3.48108,325,793 - 108,326,123RGDRGSC3.4
RGSC_v3.48108,325,875 - 108,326,088UniSTSRGSC3.4
RGSC_v3.18108,345,248 - 108,345,578RGD
Celera8103,273,349 - 103,273,556UniSTS
SHRSP x BN Map866.2399RGD
SHRSP x BN Map866.2399UniSTS
Cytogenetic Map8q32UniSTS
D8Got170  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28103,896,990 - 103,897,441 (+)MAPPERmRatBN7.2
mRatBN7.28103,897,143 - 103,897,441 (+)MAPPERmRatBN7.2
Rnor_6.08111,800,139 - 111,800,435NCBIRnor6.0
Rnor_6.08111,799,957 - 111,800,435NCBIRnor6.0
Rnor_5.08111,191,718 - 111,192,014UniSTSRnor5.0
Rnor_5.08111,191,536 - 111,192,014UniSTSRnor5.0
RGSC_v3.48108,325,800 - 108,326,096UniSTSRGSC3.4
RGSC_v3.48108,325,799 - 108,326,096RGDRGSC3.4
RGSC_v3.18108,345,254 - 108,345,551RGD
Celera8103,273,274 - 103,273,564UniSTS
RH 2.0 Map8888.8RGD
Cytogenetic Map8q32UniSTS
RH131225  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28103,931,353 - 103,931,546 (+)MAPPERmRatBN7.2
Rnor_6.08111,834,575 - 111,834,767NCBIRnor6.0
Rnor_5.08111,226,418 - 111,226,610UniSTSRnor5.0
RGSC_v3.48108,360,445 - 108,360,637UniSTSRGSC3.4
Celera8103,307,460 - 103,307,652UniSTS
RH 3.4 Map81158.0UniSTS
Cytogenetic Map8q32UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
631217Activ1Activity QTL 115.9voluntary movement trait (VT:0003491)number of photobeam interruptions in an experimental apparatus (CMO:0001517)8102370617108923645Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:21
Interacting mature miRNAs:22
Transcripts:ENSRNOT00000013265
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 26 44 30 19 30 1 1 68 24 39 10 1
Low 1 17 13 11 11 7 10 6 11 2 1 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013265   ⟹   ENSRNOP00000013265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8103,887,865 - 103,927,296 (+)Ensembl
Rnor_6.0 Ensembl8111,790,678 - 111,827,151 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109766   ⟹   ENSRNOP00000096497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8103,887,865 - 103,931,674 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115411   ⟹   ENSRNOP00000087421
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8103,887,865 - 103,931,674 (+)Ensembl
RefSeq Acc Id: XM_039082587   ⟹   XP_038938515
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28103,887,805 - 103,931,662 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038938515 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77383 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: ENSRNOP00000013265   ⟸   ENSRNOT00000013265
RefSeq Acc Id: XP_038938515   ⟸   XM_039082587
RefSeq Acc Id: ENSRNOP00000096497   ⟸   ENSRNOT00000109766
RefSeq Acc Id: ENSRNOP00000087421   ⟸   ENSRNOT00000115411

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZRG0-F1-model_v2 AlphaFold D3ZRG0 1-1318 view protein structure

Transcriptome

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

Promoters
RGD ID:13696231
Promoter ID:EPDNEW_R6755
Type:initiation region
Name:Topbp1_1
Description:DNA topoisomerase II binding protein 1
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_6.08111,790,690 - 111,790,750EPDNEW

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)
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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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562949 AgrOrtholog
BioCyc Gene G2FUF-29326 BioCyc
Ensembl Genes ENSRNOG00000009789 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013265.8 UniProtKB/TrEMBL
  ENSRNOP00000087421.1 UniProtKB/TrEMBL
  ENSRNOP00000096497 ENTREZGENE
  ENSRNOP00000096497.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013265.8 UniProtKB/TrEMBL
  ENSRNOT00000109766 ENTREZGENE
  ENSRNOT00000109766.1 UniProtKB/TrEMBL
  ENSRNOT00000115411.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10190 UniProtKB/TrEMBL
InterPro BRCT UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  TopBP1_BRCT_1 UniProtKB/TrEMBL
NCBI Gene 315969 ENTREZGENE
Pfam BRCT UniProtKB/TrEMBL
  PTCB-BRCT UniProtKB/TrEMBL
PhenoGen Topbp1 PhenoGen
PROSITE BRCT UniProtKB/TrEMBL
SMART BRCT UniProtKB/TrEMBL
Superfamily-SCOP BRCT UniProtKB/TrEMBL
UniProt A0A8I6GFZ6_RAT UniProtKB/TrEMBL
  A0A8I6GM39_RAT UniProtKB/TrEMBL
  D3ZRG0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-16 Topbp1  DNA topoisomerase II binding protein 1  Topbp1  topoisomerase (DNA) II binding protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-07-28 Topbp1  topoisomerase (DNA) II binding protein 1  Topbp1  topoisomerase (DNA) II beta binding protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-03 Topbp1  topoisomerase (DNA) II beta binding protein  RGD1562949_predicted  similar to mKIAA0259 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562949_predicted  similar to mKIAA0259 protein (predicted)  LOC315969  similar to mKIAA0259 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC315969  similar to mKIAA0259 protein      Symbol and Name status set to provisional 70820 PROVISIONAL