Gene detail

Detailed information of CAB3982936.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3982936.1, DNA topoisomerase 2-beta isoform X2 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3982936.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

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)	OG0002437 (this species only)

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
PF16898 all species →	TOPRIM_C	C-terminal associated domain of TOPRIM	Family	Interproscan
PF00521 all species →	DNA_topoisoIV	DNA gyrase/topoisomerase IV, subunit A	Family	Interproscan
PF01751 all species →	Toprim	Toprim domain	Family	Interproscan
PF00204 all species →	DNA_gyraseB	DNA gyrase B	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003594 all species →	Domain	Histidine kinase/HSP90-like ATPase	Interproscan
IPR013759 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, subunit B, C-terminal	Interproscan
IPR018522 all species →	Conserved_site	DNA topoisomerase, type IIA, conserved site	Interproscan
IPR014721 all species →	Homologous_superfamily	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Interproscan
IPR031660 all species →	Domain	C-terminal associated domain of TOPRIM	Interproscan
IPR002205 all species →	Domain	DNA topoisomerase, type IIA, domain A	Interproscan
IPR013760 all species →	Homologous_superfamily	DNA topoisomerase, type IIA-like domain superfamily	Interproscan
IPR006171 all species →	Domain	TOPRIM domain	Interproscan
IPR034157 all species →	Domain	DNA topoisomerase 2, TOPRIM domain	Interproscan
IPR036890 all species →	Homologous_superfamily	Histidine kinase/HSP90-like ATPase superfamily	Interproscan
IPR001241 all species →	Family	DNA topoisomerase, type IIA	Interproscan
IPR013758 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, domain A, alpha-beta	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR013506 all species →	Domain	DNA topoisomerase, type IIA, subunit B, domain 2	Interproscan
IPR013757 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, alpha-helical domain superfamily	Interproscan
IPR050634 all species →	Family	DNA Topoisomerase II Enzyme	Interproscan
IPR001154 all species →	Family	DNA topoisomerase II, eukaryotic-type	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:0006259 all species →	Biological Process	DNA metabolic process	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

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.

Expression pattern (RNA-seq)

Transcript abundance of CAB3982936.1 across 21 RNA-seq samples of Paramuricea clavata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

21Samples

13TPM > 0

4Conditions

59.1Max TPM

10.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	27.56	59.11
apical branchlet · Temperature treatment at T0	6	4	7.03	15.96
apical branchlet · Temperature treatment at T25	5	2	2.05	5.55
apical branchlet · Control at T0	4	1	2.63	10.54

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	59.11
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	50.95
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	28.47
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	20.94
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	5.60
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.28
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	15.96
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.55
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	8.87
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	7.78
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	5.55
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	4.71
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	10.54
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.