Gene detail

Detailed information of ENSLDHP00000023513.1 in Eunicella cavolini

Genomic Location: chr2:14592647...14623190
NR annotation: CAB3982936.1, DNA topoisomerase 2-beta isoform X2 [Paramuricea clavata]
Species Eunicella cavolini · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSLDHT00000025451

ATGGAAAAAAACATGAATGCTGCTCCagataaacaaaaacaaaaaaaatcaaataaaagaCTTTCAGTGGAAAGGATCTACCAGAAGAAGACACAGCTGGAACACATCTTGCTTCGTCCAGATGCCTACATTGGTTCTGTTGAGCCAACTCGCCAGCAGATGTGGGTTTGGGATGCAGAGAGGACGTGTATGGTTAACCGTGAGATTACTTATGTTCCTGGGTTATACAAGATCTTTGATGAAATTCTTGtCAATGCTGCTGACAATAAGCAAAGAGATCCAAGAATGAATTACATAAAAGTTAACATTGATCCTGAAAGCAACCTGATATCTGTTCAAAACAATGGCAGAGGAATCCCTATTGAAATGCATAGAGATGAGAAAATGTATGTGCCGAGCATGATATTTGGTCATTTGCTGACATCAAGTAACTATGACGACTCCCAGAAGAAAGTGACTGGAGGCAGAAATGGATATGGTGCTAAACTCTGTAACATTTACAGTACTGAGTTCACAGTTGAAACTGTGTGTGATAATAAACATTTCAAACAGACATGGAAAAGCAATATGACTAAGACAAAAGAACCCAATATCAAGGAAACCGACCGTAACGACTACACTTCTATTATGTATCATCCGGATCTGAAAAGATTCAAAATGGAGAAACTAGACAATGATACCGTAGCATTGCTGACAAAACGAGCATATGATATCGCAGGTTGTGTCCGTGGTGTTAACGTATAtttgaatggaaaaaagcttcCGATATCAACGTTCAGAGATTACATGGAACTCTATCTGAAAGAGGGCAACGACTCAGATGATGAAAGTGAAGAGATCAGAAAGATTGTACATGAGAAAGTCAATGGACGCTGGGAGGTGGCGGTCACCGTTAGCAACAAAGGTTTCCAACAAGCAAGTTTTGTCAACAGCATTGCCACCACTAAGGGTGGAACACATGTGACCTATGTCGTTGATCAAATTATTGAAAAACTAGTCGGTATTATCAAGAAGAAATCCGGGAAAGGAAGCGTCGCAATTAAACCGTTTCAGATCAAGAACCATATCTGGGTGTTCATTAATTGTTTGGTCGAGAACCCGTCGTTTGATTcgcaaacaaaagaaaacatgACTCTTCGTATAAAGGATTTTGGATCTGACTGTATCTTGGGTGAAAAGTTTGTTAAAGGGGTGACGCATTGTGGTGTCGTGGAAAACATTCTTGATTGGGTTAAAGTAAAAACACAGAGTCAGTTGAAGAAGAACAGTGGTAGTAAACACTCTAAACTAAAAGGAATTCCAAAACTTGACGATGCAAATGAAGCAGGTACCAAGAACTCTATTGATTGTACCCTCATCTTAACCGAAGGAGATTCAGCCAAAACGTTGGCTGTCAGTGGTCTTAGCGTGGTTGGTCGTGATCGCTATGGCGTATTTCCTCTGCGTGGTAAATTGCTCAATGTCCGAGAGGCCTCGCACAAACAGTTAATGGAGAATGCAGAAGTGAACAACATCGTGAAAATAATGGGACTGCAATATGGAAAGAAGTATCGTAGTGTTGATGACATGAAGAGCTTACGCTATGGTCGCCTTATGATCATGACAGATCAGGATCAAGATGGATCTCATATCAAGGGATTATTAATTAACTTCATACATCATAATTGGCCTGATCTCTTACGATTGCCTTTCCTTGAGGAGTTCATTACTCCTATTGTTAAGGTTTCCAAGGGCAAAGAAGAACTGTCGTTCTATAGTATTCCCGAGTTTGAAGAATGGAAGGAAAACACGGCAAACGTAAAGTCATGGAAGATCAAATACTACAAAGGTTTGGGTACGAGTACGCCCAAAGAGGCGAAGGAGTATTTTGCTGATATGGACAGACATCGGATTCTCTTTGATTACTCTGGCATCACTGATGACGAAGCTATTTCTCTTGCATTCAGTAAAAAGAAAGTGGGTGAACGTAAAGAATGGTTGGCCCAGCAACTGGAAGAAAGAAAGACACGAAGGGAAGCTGGATTACCTGAGTTGTATCTCTACGGACCTGGCACCAAGAGAATCACTTACACTGACTTTGTCAACAAAGAGTTAATTTTGTTTTCCAATGCGGACAACGAAAGATCAATCCCGTCCATTGTTGATGGACTGAAACCAGGCCAAAGGAAGGTGCTGTTCACGTGTTTCAAGCGTAACGATAAGAGAGAAGTGAAAGTTGCTCAGCTATCCGGATCTGTAGCTGAACTCTCTGCTTACCATCATGGAGAGCAAAGTCTTGCGATGACGATCGTGAATTTGGCTCAGAACTTCGTTGGTAGCAACAACTTGAACCTGCTGTTGCCTATCGGTCAATTTGGTACTCGTATTCATGGCGGTAAAGATTCTGCAAGTGCTCGATACATCTTCACGAAACTCAGTCCATTGGCGCGACTTGTGTTTCCACAGCACGACGATAACGTTTTAAATTTCCTGGTAGAGGATAACCAGATGATCGAGCCTGAATGGTATTGTCCTATTATACCTATGGCCTTAGTGAATGGTGCTGATGGTATCGGTACTGGATATAGTACCAAAATACCGAACTTTGATGTTCGTCAGTTGGCACAGTATATTAAGGATATCTTAGAAGATCGCGAACCACAACCCGTGCACCCGACGTACAAGAACTTTACTGGTGAGATTAATCAGATTGATAATCAAAAATATGAAGTACTGGGTCGAGCGGAAGTGCTTGATGAAAAGACAGTTGAGGTTACAGAACTTCCTGTTGGGACATGGACACAAGCCTACAAGGAGTCCACCTTAGAAATAATGTTGCATGGTACTGCGAAATACAAGAGCTGTATCACTGACTACAAAGAGTACAACACGGATATAAATGTCAACTTTAAAGTGACGATGGCTGAAGAAGAACTTGTTGCAATACAAAATCAAGGCTTGATGAAGAAGTTTAATCTGACATCTTCCATTAATCTCAGTAACATGGTGTTGTTTGATGCGTTCGGAGCTCTAAAGAAGTACGAGAATGTCAACGACATCATCCGAGAGCATTACGGCATTCGTTTGAACTGCTATGTGAAACGGAAGGAATTTCTCGAAGGAATGTTGGCTGCCGAAGCAGAGAGATTGACGGCGCAGGCGAGGTTTATCTTAGAGAAAATCGATGGCACTATCGTCATAGaaaacaaaaagaaacgTGATGTTGTGGTGAAGCTGGTAGAACGTGGTTATCCCTCAGACCCTGTAAAGGTCTGGAAAGAAAGCCAGAAACAAAACAATGCAATCGTTGAGGAAACTGATGATGATGAATCTCGTAGTGAAactagctctgtcagttctacaTCAAGTTCTTCCAGCAGTGGACCTGATTACGCTTATCTACTTAGCATGGCAATCCTCAGTCTCTCTAAGGAAAAGAAAGATGAATTATTGAAACAACGAGATGATAAGCGGTCTGAATTGGAGACGTTACGCAACAAGACACCAAAAGACTTGTGGCTTCAAGACTTAGATGTTTTCCTTGAACAACTTGAGATTGTTGAAGCTCAAGAACGAGAAGAAGCCGAAGCCGGCTCTAAGGTCGCGCGTAAGAACAAATCCGGAAAATCGAGTAAATCTTCAAGGGCTCGCAAACCTGCCGCAACAAAGTCAAAGAACACAATCGAGAAAGCTTTCGCGAAGCAAGAGGCCAAAGCTAAAGCTAGTGAGAAAGAAATTGCCAAGGAGGAAAAACCTAAATACGACTGGGGATTCAGTGATGACAGCGAGAGCCGCGACATGTTAACATTATCTGAAAGAGTGGCATTAAAGATTAATGAAGATACTTCGGATGGCGCATCCTCAGTGAGCAGTAAGCAAGCTGGAAAGAAATCTGCAAGCGCATCAGAAGCAGGTTCATCTGCAGGCAGTAAAGCGAAGAAATCAAAGCCTCGGCAAACTTCCGATTCTGAGTCGTCAGTTGCTTCTCAAAAAACTAAAAGTAAAGCGAAGAAATTGAAGTCCCCTGCAAAGCGGAAATCAGCGAACAATGACATTATAGAAATCGACTCTGATTCGTCGGTAAATAGCACTGTTGCAAAGACATCGAAACCCCCTGCCAAAAAGGCCAGAACAACGACAAAGGCTAAAGCATCAGCCGCACCAAAGCGATCTCGTGACATCCTATCCAGTAGTGACGAAGACGACATTGCAAGTGTCGATAGTGAACCTGTCTCACCTGTCAAGAGACCATCCAGACGTCAGAAACCTGCTGTGAAATATAACTTTGATGACGATGACGATGAAGATGAGAGTCGGGATGCTTCTGGTGCCGAGGAAGATTGGATGGATGATGATGTTGATGACGGTGATGACAGTGATTTCGATGTATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O42131	DNA topoisomerase 2-beta OS=Gallus gallus OX=9031 GN=TOP2B PE=2 SV=1
O42130	DNA topoisomerase 2-alpha OS=Gallus gallus OX=9031 GN=TOP2A PE=2 SV=2
Q64511	DNA topoisomerase 2-beta OS=Mus musculus OX=10090 GN=Top2b PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002381 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02518 all species →	HATPase_c	Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase	Domain	Interproscan
PF00521 all species →	DNA_topoisoIV	DNA gyrase/topoisomerase IV, subunit A	Family	Interproscan
PF16898 all species →	TOPRIM_C	C-terminal associated domain of TOPRIM	Family	Interproscan
PF00204 all species →	DNA_gyraseB	DNA gyrase B	Domain	Interproscan
PF01751 all species →	Toprim	Toprim domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006171 all species →	Domain	TOPRIM domain	Interproscan
IPR013759 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, subunit B, C-terminal	Interproscan
IPR003594 all species →	Domain	Histidine kinase/HSP90-like ATPase	Interproscan
IPR036890 all species →	Homologous_superfamily	Histidine kinase/HSP90-like ATPase superfamily	Interproscan
IPR002205 all species →	Domain	DNA topoisomerase, type IIA, domain A	Interproscan
IPR050634 all species →	Family	DNA Topoisomerase II Enzyme	Interproscan
IPR013757 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, alpha-helical domain superfamily	Interproscan
IPR001154 all species →	Family	DNA topoisomerase II, eukaryotic-type	Interproscan
IPR001241 all species →	Family	DNA topoisomerase, type IIA	Interproscan
IPR031660 all species →	Domain	C-terminal associated domain of TOPRIM	Interproscan
IPR014721 all species →	Homologous_superfamily	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Interproscan
IPR034157 all species →	Domain	DNA topoisomerase 2, TOPRIM domain	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR018522 all species →	Conserved_site	DNA topoisomerase, type IIA, conserved site	Interproscan
IPR013760 all species →	Homologous_superfamily	DNA topoisomerase, type IIA-like domain superfamily	Interproscan
IPR013758 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, domain A, alpha-beta	Interproscan
IPR013506 all species →	Domain	DNA topoisomerase, type IIA, subunit B, domain 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10169 all species →	DNA TOPOISOMERASE/GYRASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003918 all species →	Molecular Function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006265 all species →	Biological Process	DNA topological change	Interproscan
GO:0000712 all species →	Biological Process	resolution of meiotic recombination intermediates	Interproscan
GO:0000819 all species →	Biological Process	sister chromatid segregation	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006259 all species →	Biological Process	DNA metabolic process	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03164	TOP2; DNA topoisomerase II	EC:5.6.2.2	Chromosome and associated proteins	ko03036	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Eunicella cavolini tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Eunicella cavolini, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →