Gene detail

Detailed information of CAB3983067.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3983067.1, DNA topoisomerase I, mitochondrial isoform X1 [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3983067.1 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
Q7YR26	DNA topoisomerase 1 OS=Chlorocebus aethiops OX=9534 GN=TOP1 PE=2 SV=1
P11387	DNA topoisomerase 1 OS=Homo sapiens OX=9606 GN=TOP1 PE=1 SV=2
Q04750	DNA topoisomerase 1 OS=Mus musculus OX=10090 GN=Top1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005150 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02919 all species →	Topoisom_I_N	Eukaryotic DNA topoisomerase I, DNA binding fragment	Family	Interproscan
PF14370 all species →	Topo_C_assoc	C-terminal topoisomerase domain	Family	Interproscan
PF01028 all species →	Topoisom_I	Eukaryotic DNA topoisomerase I, catalytic core	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036202 all species →	Homologous_superfamily	DNA topoisomerase I, DNA binding, eukaryotic-type, N-terminal domain superfamily	Interproscan
IPR014727 all species →	Homologous_superfamily	DNA topoisomerase I, catalytic core, alpha/beta subdomain	Interproscan
IPR008336 all species →	Domain	DNA topoisomerase I, DNA binding, eukaryotic-type	Interproscan
IPR025834 all species →	Domain	Topoisomerase I C-terminal domain	Interproscan
IPR001631 all species →	Family	DNA topoisomerase I	Interproscan
IPR014711 all species →	Homologous_superfamily	DNA topoisomerase I, catalytic core, alpha-helical subdomain, eukaryotic-type	Interproscan
IPR013500 all species →	Domain	DNA topoisomerase I, catalytic core, eukaryotic-type	Interproscan
IPR048045 all species →	Domain	DNA topoisomerase I, DNA-binding domain	Interproscan
IPR011010 all species →	Homologous_superfamily	DNA breaking-rejoining enzyme, catalytic core	Interproscan
IPR013030 all species →	Homologous_superfamily	DNA topoisomerase I, DNA binding, N-terminal domain 2	Interproscan
IPR051062 all species →	Family	DNA topoisomerase IB	Interproscan
IPR013034 all species →	Homologous_superfamily	DNA topoisomerase I, DNA binding, N-terminal domain 1	Interproscan
IPR018521 all species →	Active_site	DNA topoisomerase I, active site	Interproscan
IPR013499 all species →	Domain	DNA topoisomerase I, eukaryotic-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10290 all species →	DNA TOPOISOMERASE I	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003917 all species →	Molecular Function	DNA topoisomerase type I (single strand cut, ATP-independent) activity	Interproscan
GO:0005694 all species →	Cellular Component	chromosome	Interproscan
GO:0006265 all species →	Biological Process	DNA topological change	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0007059 all species →	Biological Process	chromosome segregation	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
K03163	TOP1; DNA topoisomerase I	EC:5.6.2.1	DNA replication proteins	ko03032	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of CAB3983067.1 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

19TPM > 0

4Conditions

149.9Max TPM

38.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	6	62.03	118.64
apical branchlet · Temperature treatment at T0	6	6	42.06	149.90
apical branchlet · Temperature treatment at T25	5	5	32.22	115.82
apical branchlet · Control at T0	4	2	5.51	16.56

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	118.64
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	68.61
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	65.95
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	54.21
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	35.25
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	29.52
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	149.90
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	37.21
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	27.09
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	22.59
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.52
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.03
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	115.82
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	18.47
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	13.98
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	6.62
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	6.22
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	16.56
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	5.48
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.