Gene detail

Detailed information of XP_031574498.1 in Actinia tenebrosa

Genomic Location: NW_022261915.1:335979...339692
NR annotation: XP_031574498.1, DNA topoisomerase 3-beta-1-like [Actinia tenebrosa]
Species Actinia tenebrosa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

XP_031574498.1

ATGAAGACAGTGTTAATGGTTGCGGAAAAGCCTTCCCTTGCCCAGTCTATTGCTGCCATCTTATCAAAAGGTAAATACAACTCGAGAAAAGGGTTGAATGGAGCGTGTTCCATTCACGAATACACTGGTATCTTTAAGAATGAGACAGTGAAATTCAAAATGACCTCTGTTTGTGGCCACGTTATGAGCTTAGATTTTCATCGCAAGTATAACAACTGGGATGCAGTTGATCCTCTTGAGTTGTTTACAGCTGCTACCTTGAAAAAAGAGGCAACGGAAAAATTACAAATGCCAAGGTTCTTAAATCAAGAAGCTAAAGGTGTAGATTATCTTGTACTGTGGCTGGATTGTGACAAAGAAGGCGAAAACATATGCTTTGAGGTCATGGACTGTGTTACCTCTGTTATGAACAAAAGAAGTGGAGAGCAAACGATCTTTAGAGCTAAGTTTTCTGCTATAACAGAGAAAGATATTTCTCATGCAATGCAAGCCTTGGGGCATCCCAACCAAAATGAATCTTTATCAGTTGATGCCAGACAAGAATTGGACTTGAGGATTGGTTGTGCCTTCACAAGATTCCAAACCAAGTATTTTCAAGGAAAATATGGAGATTTGGACAGTGCACTAATTTCCTATGGACCTTGCCAAACACCTACACTTGGATTCTGTGTTGAAAGACATGACCATATACAGTCATTCAAACCTGAAGCTTTCTGGGTTATTAAAGTTCAGGCCACACATCCTTGTGGTAAGATTTTGTCTTTGGATTGGAATAGAATCAGGTTATTTGATAAAGATATTGCACTAATGTTTCAAAACCTGGTTAAAGAATCAAGTGGAGCTAGAGTTGTTGATATTTCTAAAGTTCAGAAAACTAAGAGCCGACCTCAAGCTCTTAATACTGTGGAAATGCTTCGTACTGCCTCTTCTGGATTAGGCATTGGTCCACAGTATACTATGCAGCTTGCAGAGAAGCTTTACACTCAGGGATATATAAGTTACCCCAGAACTGAAACAACTCATTACCCAGAAAGTTTTGACCTTAAAGGAACACTTCGCCTTCAGCTCTCAAATCCAAACTGGGGTGAATATGTAAAAGAACTGCTAAATGGGCAAATGACCAAACCAAAAAAGGGCTATGATGCTGGTGACCATCCTCCAATCACGCCAATGAAAAGTGCAACTGCATCAGAACTTGGTGGGGATCTCTGGAGATTGTATGACTTTATAACGAGGCATTTTATAGGCACATTGAGTCCAGATTCCAAGTATTTGCAAACCACTGTTAAATTTGCCATTGGAAAAGAGGAGTTTAGTTTCTCAGGAAAAGCAGTGATCGATGAGGGTTTCACTTCAGTCATGACCTGGCTGGCAGTTGCCAATGATGAGCAGTTACCACCATGTTCTAAAAATGATGTGTATCAAATTTCTGTTGTGAAGCTAGAGGAGAGGCAAACATCACCTCCTGATTTTCTGACAGAGAGTGAACTTATATCTCTGATGGAAAAGCATGGCATTGGTACAGATGCTAGCATTGCAGTTCATATAAATAACATCTGTGAAAGGAACTATGTCCAGGTACAGAGTGGACGCAAACTGGTACCTACCACCTTAGGTATAGTTTTGGTTCATGGTTATCAGAAAATTGACCCAGAGTTAGTGCTTCCCACAATGAGATCAGATGTAGAAGCTCAGTTGAATCTCATAGCACATGGCAAAGCTGATTTTCATGCTGTTTTGAATCATGCATCAAATATTTTTACTAAGAAATACATGTATTTTGTCTCAACAATTGGCAGCATGGATGAACTCTTTGAAGTTTCATTTACTCCTCTTGCTAAGACTGGGAAGCCTCTGTCGAGGTGTGGGAAATGTAATCGTTACATGAAGTACATTCATGCAAAGCCGTCCCGCCTGCACTGTGCCAACTGCGATGAAACATACAGCCTCCCCCAAAATGGTAGCATCAAGCTGTACAAAGAGATTAAATGCCCTCTTGATGATTTTGAACTAGTACTATGGTCAACTGGTGCAAAAGGGAAAAGCACTGCTGTTTGTCCATATTGTTACAATCATCCACCTTTTCCAGATATGCGCAAGGGTATGGGGTGCAATCAGTGTTCACATCCAGCATGTCCACATTCAGAAGAAGCCTTAAGCGTAGCAGACTGCACAGAATGTGGAAAGGGAAGTTTGATTTTAGACCCTACTTCAGCTCCAAAATGGCGACTAGCATGTAATAACTGTAATATGCTTATTCACTTGTGTGAGGGTGCATTTCGCATCTCAGTGGCTGATCAAATTTGCAGTTGTGGATCAGCACTTCTTAATATTAACTTTAATAAATCCAGCAGTCCTTTGCCTGAAAACAAGACACAGCACTATGGCTGCCTCTTTTGCGATCCATTATTACTTCCTCTTATGAATATGCAGCATGCTGCATCTAAGCACCCTATGTTTAGGGGAGGAAGAGGGAGAGGGAGGGGAGGAAGAGGGAGGGGTCGGAGACGTGGTCGTGGTAGAAGTGAACCTAAAGACAAAATGTCCCGACTTGCAGCTTATTTTGTTTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O95985	DNA topoisomerase 3-beta-1 OS=Homo sapiens OX=9606 GN=TOP3B PE=1 SV=1
Q9Z321	DNA topoisomerase 3-beta-1 OS=Mus musculus OX=10090 GN=Top3b PE=1 SV=1
O96651	DNA topoisomerase 3-beta OS=Drosophila melanogaster OX=7227 GN=Top3beta PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007997 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01131 all species →	Topoisom_bac	DNA topoisomerase	Family	Interproscan
PF01751 all species →	Toprim	Toprim domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013824 all species →	Homologous_superfamily	DNA topoisomerase, type IA, central region, subdomain 1	Interproscan
IPR006171 all species →	Domain	TOPRIM domain	Interproscan
IPR003601 all species →	Domain	DNA topoisomerase, type IA, domain 2	Interproscan
IPR023405 all species →	Homologous_superfamily	DNA topoisomerase, type IA, core domain	Interproscan
IPR013825 all species →	Homologous_superfamily	DNA topoisomerase, type IA, central region, subdomain 2	Interproscan
IPR000380 all species →	Family	DNA topoisomerase, type IA	Interproscan
IPR013497 all species →	Domain	DNA topoisomerase, type IA, central	Interproscan
IPR023406 all species →	Active_site	DNA topoisomerase, type IA, active site	Interproscan
IPR013826 all species →	Homologous_superfamily	DNA topoisomerase, type IA, central region, subdomain 3	Interproscan
IPR003602 all species →	Domain	DNA topoisomerase, type IA, DNA-binding domain	Interproscan
IPR034144 all species →	Domain	DNA topoisomerase 3-like, TOPRIM domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11390 all species →	PROKARYOTIC DNA TOPOISOMERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003916 all species →	Molecular Function	DNA topoisomerase activity	Interproscan
GO:0006265 all species →	Biological Process	DNA topological change	Interproscan
GO:0003917 all species →	Molecular Function	DNA topoisomerase type I (single strand cut, ATP-independent) activity	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
K03165	TOP3; DNA topoisomerase III	EC:5.6.2.1	DNA repair and recombination proteins	ko03400	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_031574498.1 across 18 RNA-seq samples of Actinia tenebrosa. 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.

18Samples

9TPM > 0

6Conditions

3.7Max TPM

1.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organism	5	3	1.59	3.24
Tentacle	4	3	1.31	2.60
Mesentery	3	0	0.00	0.00
Acrorhagi	3	2	1.66	3.73
whole	2	0	0.00	0.00
whole organisim	1	1	1.74	1.74

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR4696535	whole organism	Whole Organism	not recorded	not recorded	SRP092287	3.24
SRR3210696	whole organism	whole organism	not recorded	not recorded	SRP070917	3.13
SRR3206038	whole organism	whole organism	not recorded	not recorded	SRP070917	1.61
SRR2437124	whole organism	whole organism	not recorded	not recorded	SRP063756	0.00
SRR3193648	whole organism	whole organism	not recorded	not recorded	SRP070917	0.00
SRR4677522	Tentacle	Tentacle	not recorded	not recorded	SRP092287	2.60
SRR4677495	Tentacle	Tentacle	not recorded	not recorded	SRP092287	1.77
SRR6282389	Tentacle	Tentacles	not recorded	not recorded	SRP124815	0.88
SRR4677502	Tentacle	Tentacle	not recorded	not recorded	SRP092287	0.00
SRR4677488	Mesentery	Mesentery	not recorded	not recorded	SRP092287	0.00
SRR4677492	Mesentery	Mesentery	not recorded	not recorded	SRP092287	0.00
SRR4677518	Mesentery	Mesentery	not recorded	not recorded	SRP092287	0.00
SRR4677507	Acrorhagi	Acrorhagi	not recorded	not recorded	SRP092287	3.73
SRR4677512	Acrorhagi	Acrorhagi	not recorded	not recorded	SRP092287	1.24
SRR4677515	Acrorhagi	Acrorhagi	not recorded	not recorded	SRP092287	0.00
SRR3193284	whole	whole	not recorded	not recorded	SRP070917	0.00
SRR3216075	whole	whole	not recorded	not recorded	SRP070917	0.00
SRR3207346	whole organisim	whole organisim	not recorded	not recorded	SRP070917	1.74

Source: CnidoSite RNA-seq expression matrices (ATENE_TPM, StringTie quantification over 18 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.