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Top1 DNA topoisomerase I [ Rattus norvegicus (Norway rat) ]

Gene ID: 64550, updated on 12-Aug-2018

Summary

Official Symbol
Top1provided by RGD
Official Full Name
DNA topoisomerase Iprovided by RGD
Primary source
RGD:621246
See related
Ensembl:ENSRNOG00000047611
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Ab2-086
Summary
human homolog catalyzes the transient breakage and rejoining of DNA; plays a role in nucleotide excision repair [RGD, Feb 2006]
Expression
Biased expression in Spleen (RPKM 242.9), Thymus (RPKM 228.2) and 9 other tissues See more
Orthologs

Genomic context

See Top1 in Genome Data Viewer
Location:
3q42
Exon count:
21
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (156635688..156717686)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 3 NC_005102.3 (162865335..162947076)

Chromosome 3 - NC_005102.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102550999 Neighboring gene uncharacterized LOC103691948 Neighboring gene uncharacterized LOC102551164 Neighboring gene phospholipase C, gamma 1

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Related articles in PubMed

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
ATP binding ISO
Inferred from Sequence Orthology
more info
 
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
DNA binding ISO
Inferred from Sequence Orthology
more info
 
DNA topoisomerase type I activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA topoisomerase type I activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA topoisomerase type I activity IEA
Inferred from Electronic Annotation
more info
 
DNA topoisomerase type I activity ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
chromatin DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
chromatin binding IEA
Inferred from Electronic Annotation
more info
 
chromatin binding ISO
Inferred from Sequence Orthology
more info
 
double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
protein domain specific binding IEA
Inferred from Electronic Annotation
more info
 
protein domain specific binding ISO
Inferred from Sequence Orthology
more info
 
protein serine/threonine kinase activity IEA
Inferred from Electronic Annotation
more info
 
protein serine/threonine kinase activity ISO
Inferred from Sequence Orthology
more info
 
protein-containing complex binding IDA
Inferred from Direct Assay
more info
PubMed 
single-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
 
single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
supercoiled DNA binding IEA
Inferred from Electronic Annotation
more info
 
supercoiled DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
DNA replication IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA replication IEA
Inferred from Electronic Annotation
more info
 
DNA replication ISO
Inferred from Sequence Orthology
more info
 
DNA topological change IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA topological change IDA
Inferred from Direct Assay
more info
PubMed 
DNA topological change IEA
Inferred from Electronic Annotation
more info
 
DNA topological change ISO
Inferred from Sequence Orthology
more info
 
animal organ regeneration IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to luteinizing hormone stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin remodeling IEA
Inferred from Electronic Annotation
more info
 
chromatin remodeling ISO
Inferred from Sequence Orthology
more info
 
chromatin remodeling ISS
Inferred from Sequence or Structural Similarity
more info
 
chromosome segregation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
circadian regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
circadian regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
circadian regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
circadian rhythm ISO
Inferred from Sequence Orthology
more info
 
embryonic cleavage IEA
Inferred from Electronic Annotation
more info
 
embryonic cleavage ISO
Inferred from Sequence Orthology
more info
 
peptidyl-serine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
peptidyl-serine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
rRNA transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to cAMP IEP
Inferred from Expression Pattern
more info
PubMed 
response to drug IEA
Inferred from Electronic Annotation
more info
 
response to drug ISO
Inferred from Sequence Orthology
more info
 
response to gamma radiation IEP
Inferred from Expression Pattern
more info
PubMed 
response to temperature stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
DNA topoisomerase complex (ATP-hydrolyzing) IEA
Inferred from Electronic Annotation
more info
 
DNA topoisomerase complex (ATP-hydrolyzing) ISO
Inferred from Sequence Orthology
more info
 
P-body IEA
Inferred from Electronic Annotation
more info
 
P-body ISO
Inferred from Sequence Orthology
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
dense fibrillar component IDA
Inferred from Direct Assay
more info
PubMed 
fibrillar center IDA
Inferred from Direct Assay
more info
PubMed 
fibrillar center IEA
Inferred from Electronic Annotation
more info
 
fibrillar center ISO
Inferred from Sequence Orthology
more info
 
nuclear chromosome IEA
Inferred from Electronic Annotation
more info
 
colocalizes_with nuclear chromosome ISO
Inferred from Sequence Orthology
more info
 
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus ISO
Inferred from Sequence Orthology
more info
 
nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 
perikaryon IEA
Inferred from Electronic Annotation
more info
 
perikaryon ISO
Inferred from Sequence Orthology
more info
 
protein-DNA complex IEA
Inferred from Electronic Annotation
more info
 
protein-DNA complex ISO
Inferred from Sequence Orthology
more info
 
replication fork protection complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
DNA topoisomerase 1
Names
topoisomerase (DNA) I
NP_072137.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_022615.1NP_072137.1  DNA topoisomerase 1

    See identical proteins and their annotated locations for NP_072137.1

    Status: PROVISIONAL

    Source sequence(s)
    AF140782
    UniProtKB/Swiss-Prot
    Q9WUL0
    Related
    ENSRNOP00000072794.1, ENSRNOT00000086260.1
    Conserved Domains (4) summary
    smart00435
    Location:362739
    TOPEUc; DNA Topoisomerase I (eukaryota)
    pfam01028
    Location:434637
    Topoisom_I; Eukaryotic DNA topoisomerase I, catalytic core
    pfam02919
    Location:217431
    Topoisom_I_N; Eukaryotic DNA topoisomerase I, DNA binding fragment
    pfam14370
    Location:697765
    Topo_C_assoc; C-terminal topoisomerase domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005102.4 Reference Rnor_6.0 Primary Assembly

    Range
    156635688..156717686
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000071.1 Alternate Rn_Celera

    Range
    147968261..148049789
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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