TOPBP1 (DNA topoisomerase II binding protein 1) - Rat Genome Database

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Gene: TOPBP1 (DNA topoisomerase II binding protein 1) Pan paniscus
Analyze
Symbol: TOPBP1
Name: DNA topoisomerase II binding protein 1
RGD ID: 11811444
Description: ENCODES a protein that exhibits chromatin-protein adaptor activity (inferred); identical protein binding (inferred); phosphorylation-dependent protein binding (inferred); INVOLVED IN broken chromosome clustering (inferred); chromatin organization (inferred); chromosome organization (inferred); ASSOCIATED WITH alkaptonuria (ortholog); B-Cell Chronic Lymphocytic Leukemia (ortholog); Primary Lymphedema with Myelodysplasia (ortholog); FOUND IN BRCA1-B complex (ortholog); chromosome (ortholog); site of DNA damage (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA topoisomerase 2-binding protein 1; topoisomerase (DNA) II binding protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22131,546,382 - 131,608,412 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13131,551,116 - 131,613,181 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03130,667,998 - 130,729,569 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13138,143,287 - 138,204,163 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3138,143,893 - 138,203,363 (-)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
TOPBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22131,546,382 - 131,608,412 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13131,551,116 - 131,613,181 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03130,667,998 - 130,729,569 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13138,143,287 - 138,204,163 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3138,143,893 - 138,203,363 (-)Ensemblpanpan1.1panPan2
TOPBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383133,600,238 - 133,661,941 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3133,598,175 - 133,662,380 (-)EnsemblGRCh38hg38GRCh38
GRCh373133,319,082 - 133,380,785 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363134,802,177 - 134,863,380 (-)NCBINCBI36Build 36hg18NCBI36
Build 343134,802,184 - 134,863,388NCBI
Celera3131,746,550 - 131,807,847 (-)NCBICelera
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 (-)NCBIT2T-CHM13v2.0
Topbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399103,182,351 - 103,227,627 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9103,182,414 - 103,227,627 (+)EnsemblGRCm39 Ensembl
GRCm389103,305,167 - 103,350,428 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9103,305,215 - 103,350,428 (+)EnsemblGRCm38mm10GRCm38
MGSCv379103,207,657 - 103,252,758 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369103,163,477 - 103,208,578 (+)NCBIMGSCv36mm8
Celera9102,854,061 - 102,901,479 (+)NCBICelera
Cytogenetic Map9F1NCBI
cM Map955.19NCBI
Topbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88112,766,791 - 112,815,203 (+)NCBIGRCr8
mRatBN7.28103,887,805 - 103,931,662 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8103,887,865 - 103,931,674 (+)EnsemblmRatBN7.2 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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8103,263,981 - 103,308,109 (+)NCBICelera
Cytogenetic Map8q32NCBI
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
(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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02331,036,921 - 31,098,677 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2331,037,038 - 31,098,765 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12330,730,992 - 30,792,698 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02330,788,792 - 30,850,532 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02331,036,365 - 31,098,102 (-)NCBIUU_Cfam_GSD_1.0
Topbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560270,028,281 - 70,081,249 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365296,788,187 - 6,841,888 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
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 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1556,679,426 - 56,741,566 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604129,662,936 - 29,724,640 (+)NCBIVero_WHO_p1.0Vero_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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247309,916,717 - 9,994,666 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSPPAT00000027356   ⟹   ENSPPAP00000006289
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl3138,143,893 - 138,203,363 (-)Ensembl
RefSeq Acc Id: XM_034957421   ⟹   XP_034813312
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22131,546,382 - 131,608,406 (-)NCBI
NHGRI_mPanPan13131,551,116 - 131,613,175 (-)NCBI
Mhudiblu_PPA_v03130,667,998 - 130,729,569 (-)NCBI
RefSeq Acc Id: XM_034957422   ⟹   XP_034813313
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22131,546,382 - 131,608,412 (-)NCBI
NHGRI_mPanPan13131,551,116 - 131,613,168 (-)NCBI
Mhudiblu_PPA_v03130,667,998 - 130,729,562 (-)NCBI
RefSeq Acc Id: XM_034957423   ⟹   XP_034813314
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22131,546,382 - 131,608,406 (-)NCBI
NHGRI_mPanPan13131,551,116 - 131,613,181 (-)NCBI
Mhudiblu_PPA_v03130,667,998 - 130,729,569 (-)NCBI
RefSeq Acc Id: XM_055110477   ⟹   XP_054966452
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v22131,546,382 - 131,608,412 (-)NCBI
NHGRI_mPanPan13131,551,116 - 131,613,168 (-)NCBI
Protein Sequences
Protein RefSeqs XP_034813312 (Get FASTA)   NCBI Sequence Viewer  
  XP_034813313 (Get FASTA)   NCBI Sequence Viewer  
  XP_034813314 (Get FASTA)   NCBI Sequence Viewer  
  XP_054966452 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000006289.1
Reference Protein Sequences
RefSeq Acc Id: XP_034813314   ⟸   XM_034957423
- Peptide Label: isoform X2
- UniProtKB: A0A2R8ZMW5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_034813312   ⟸   XM_034957421
- Peptide Label: isoform X1
- UniProtKB: A0A2R8ZMW5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_034813313   ⟸   XM_034957422
- Peptide Label: isoform X1
- UniProtKB: A0A2R8ZMW5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSPPAP00000006289   ⟸   ENSPPAT00000027356
RefSeq Acc Id: XP_054966452   ⟸   XM_055110477
- Peptide Label: isoform X2
Protein Domains
BRCT


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000024667 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000027356.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10190 UniProtKB/TrEMBL
InterPro BRCT_dom UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  Secretoglobin_sf UniProtKB/TrEMBL
  TopBP1-like_BRCT0 UniProtKB/TrEMBL
  TopBP1_BRCT_1 UniProtKB/TrEMBL
NCBI Gene TOPBP1 ENTREZGENE
PANTHER DNA REPLICATION REGULATOR DPB11-RELATED UniProtKB/TrEMBL
  DNA TOPOISOMERASE 2-BINDING PROTEIN 1 UniProtKB/TrEMBL
Pfam BRCT UniProtKB/TrEMBL
  TopBP1_BRCT0 UniProtKB/TrEMBL
PROSITE BRCT UniProtKB/TrEMBL
SMART BRCT UniProtKB/TrEMBL
Superfamily-SCOP SSF48201 UniProtKB/TrEMBL
  SSF52113 UniProtKB/TrEMBL
UniProt A0A2R8ZMW5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-08 TOPBP1  DNA topoisomerase II binding protein 1    topoisomerase (DNA) II binding protein 1  Symbol and/or name change 5135510 APPROVED