Gene detail

Detailed information of ENSKFPP00000012920.1 in Condylactis gigantea

Genomic Location: chr18:3342190...3360309
NR annotation: XP_031568315.1, exosome component 10-like, partial [Actinia tenebrosa]
Species Condylactis gigantea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSKFPT00000013927

atggcggacgaggaGAAGAAAGACGAACAAGAAAGAACAATCCCTGGAATAGGAGACTTGCAAGCCTTTTCTCAGAAAGCACTGAGATATCTAGTTGGTTGTACCCAGAAGGCCAACGCTCTACCAGCTCCAGGAGAGGACCATGATTTTTACTACAGTTTTTCAGATTTTAGAGAATTCCGAAAGGCTCAAGGCACAAGACTATTACACAAaaCCAATGATCTACTTAGACATTTTCATATACGTTGTGGATGGCCAAGGAAAGAACAGTCTTGTGACAGTATTGACCATGAAGACTTGTTTGAAAATCTTGTTGAAGCCAACGACATCATTCTTGAGGAAGTGGACACTAAAATAGATGAAGCGTTGGGTTTAAGCAAGAATAAGAAACCAGTAATGAACGAGTCAGTCAAGCTGGGCAAACCTGTTGTATCTAGTTGGAATCGACGTAGTCATGATGGTGCCAAAGACAAACCTGTCCGCTTACTACTGGCCAAGAATATTCTGCGCCCTCAGATAAAGTTCAAAGATAAAATTGATAACTCCAACAAGCCTTTTGTCCCCATCATCAAATACAAACCCAATGCAATTAAGGAACTTCAGATCTATGCCCCATCATCTCTTCAACCAGAAGACCTCGGCATACCCTCCGCCATAGCAGACTTTGTTCACCAACAGAGATTGATTAGTGATAATACTACCAAAAGCATTTGCCATCCTTATCAGCATGAACTAGAGGCGTTTGAGCCACCAGAAAACCAACTAAAGGAAGCAAAAGAAGAGTTATATAGAAGCCTGGAAGAAACTCCCTACACTTATGTAGAAACTGTTGAACAGCTTGAAGAACTCAGCCATATACTTTCCAATGTGAAAGAATTTGCAGTAGACTTAGAGCACCATTCATACAGGTCATTCCTAGGATTTGTCTGTCTGATGCAAATATCCACCAGAGATCATGATTATCTTATTGATACTCTTGAGCTGCGCAGTGACTTAAGCATCTTGAATGAATCTTTTACCAACCCTAAGATACTCAAGGTTCTTCATGGTGCTGACATGGACATCGGATGGTTACAGAGAGACTTTGGGTTGTATGTTGTAAACATGTTTGACACAGGCCAGGCATCAAGGGTCTTGAACTATGAGCGATTTGCCTTGAGTTACCTTTTGAAGAAGTTCTGTGGGGTGACAGCTAATAAACAATATCAGTTAGCAGACTGGAGAATAAGaCCTCTCCCTGCTGAAATGGTACAATATGCAATAGAGGACACCCATTATTTATTGTACATTTATGACCGGCTGCGAAATGAGCTCATCAAAAGTGGCAATGCTCAGAATAATCTATTAATGTCGGTCTATCAGAGGAGTAGAGCAGTTTGTTTGAAGCAATATGAGAAGCCTTTGTTCACGAAGGAATCTTACCTTAACCTCTACAAGAAGCAAAGACGTCCATTAAACCCACAACAGCTTCAAGTATTTCAAGCACTTTATGAATGGAGGGATACAATAGCCAGACAAGAAGACGAAAGTTATGGgtATGTTCTTCCAAATCACATGCTTTTCAACCTGACTGAAAGCTTGCCAAGGGAACCAACAGGTGTGCTGGCAAGCTGTAATCCAGTGCCACCCTTGGTCAAACAGTACGTGAATGAGGTACATCAGATCATCCAAGACGCTAAAGACCGGTCAATAACTGTTACCGAAGAGAGCAACACTTCAAGAGAGGTCACTCCAATGGACACAAGCTCCAGATCTCACATGATAGCAAGACTTCACTCAGAAGAATCTAGAAGCAAGGGACGAACAAATCAAAATGTGAGCGAAGTGTTAACGATTTCCAAGCCTGTGGAACCTTACGTACCAACCGGACCACAAGTCCAAACCATGAAACCAACCATTAGTCTCTTCGACTACCCACAGAAGACGGGACCTCAGGAACAGAACGAAGGGCAAAGGAAGGCTAAAGAGATCATGACCGGATTCGTTAACCCTTTCAAAGTGATATTGCCAGATTTTGAGGCCATGGACATCGGTGGCAATAACAAGACTGGACAATCCAAAGCCGGTATTGATAAGATAAATGAAAATTGGAAGAAAGCGTCGTCGGATGTCATAGAGGAGACTAAGAGTTCTGCTCAAGAAATGCAGTTCGTCGAGAGCGACAGTGACCGCGAAGACCCCACTCCTCTGAGACAAAAGATTGAgggcaagaaaaaaagaaaaaggagaaagaaaactgaaattcAAGAAGGGGATGTCCCATCGACtccaatagaaaaaaagatcaaGTCTGAAgctgttgatgttgatgatgatggtcataACCCTTCGTATGAAGTCATCACCAAAGTCAAGAAAGAATTCGTTCCGTTTGACTACAACCCTGCAGAATACAGCAAACTAGAAGGTAATCCAGAACAGTCAAAAACAGACATCTTCAACCCTTACGACcaatcaaaaaaaaagaagAAGGTGAATGGCCCTCGATCTAAAGTCCACATGAAGGCAGGACAGCGAAGCATGACTTATTCCCAAAACAGGGAAACGCAAAAGAAGCAGCAATGGCCAACAAGATAG

Transcript

ENSKFPT00000013927

ATTGAATGTTCCCTTTTTTGATAAAGTGCTGAAAATGAGTATTTATTGGTCAGCAGTAGATGCCATTAGAACAGTCCGTGAGAGACTAGGACCCACttttcaaatccaagatggcggacgaggaGAAGAAAGACGAACAAGAAAGAACAATCCCTGGAATAGGAGACTTGCAAGCCTTTTCTCAGAAAGCACTGAGATATCTAGTTGGTTGTACCCAGAAGGCCAACGCTCTACCAGCTCCAGGAGAGGACCATGATTTTTACTACAGTTTTTCAGATTTTAGAGAATTCCGAAAGGCTCAAGGCACAAGACTATTACACAAaaCCAATGATCTACTTAGACATTTTCATATACGTTGTGGATGGCCAAGGAAAGAACAGTCTTGTGACAGTATTGACCATGAAGACTTGTTTGAAAATCTTGTTGAAGCCAACGACATCATTCTTGAGGAAGTGGACACTAAAATAGATGAAGCGTTGGGTTTAAGCAAGAATAAGAAACCAGTAATGAACGAGTCAGTCAAGCTGGGCAAACCTGTTGTATCTAGTTGGAATCGACGTAGTCATGATGGTGCCAAAGACAAACCTGTCCGCTTACTACTGGCCAAGAATATTCTGCGCCCTCAGATAAAGTTCAAAGATAAAATTGATAACTCCAACAAGCCTTTTGTCCCCATCATCAAATACAAACCCAATGCAATTAAGGAACTTCAGATCTATGCCCCATCATCTCTTCAACCAGAAGACCTCGGCATACCCTCCGCCATAGCAGACTTTGTTCACCAACAGAGATTGATTAGTGATAATACTACCAAAAGCATTTGCCATCCTTATCAGCATGAACTAGAGGCGTTTGAGCCACCAGAAAACCAACTAAAGGAAGCAAAAGAAGAGTTATATAGAAGCCTGGAAGAAACTCCCTACACTTATGTAGAAACTGTTGAACAGCTTGAAGAACTCAGCCATATACTTTCCAATGTGAAAGAATTTGCAGTAGACTTAGAGCACCATTCATACAGGTCATTCCTAGGATTTGTCTGTCTGATGCAAATATCCACCAGAGATCATGATTATCTTATTGATACTCTTGAGCTGCGCAGTGACTTAAGCATCTTGAATGAATCTTTTACCAACCCTAAGATACTCAAGGTTCTTCATGGTGCTGACATGGACATCGGATGGTTACAGAGAGACTTTGGGTTGTATGTTGTAAACATGTTTGACACAGGCCAGGCATCAAGGGTCTTGAACTATGAGCGATTTGCCTTGAGTTACCTTTTGAAGAAGTTCTGTGGGGTGACAGCTAATAAACAATATCAGTTAGCAGACTGGAGAATAAGaCCTCTCCCTGCTGAAATGGTACAATATGCAATAGAGGACACCCATTATTTATTGTACATTTATGACCGGCTGCGAAATGAGCTCATCAAAAGTGGCAATGCTCAGAATAATCTATTAATGTCGGTCTATCAGAGGAGTAGAGCAGTTTGTTTGAAGCAATATGAGAAGCCTTTGTTCACGAAGGAATCTTACCTTAACCTCTACAAGAAGCAAAGACGTCCATTAAACCCACAACAGCTTCAAGTATTTCAAGCACTTTATGAATGGAGGGATACAATAGCCAGACAAGAAGACGAAAGTTATGGgtATGTTCTTCCAAATCACATGCTTTTCAACCTGACTGAAAGCTTGCCAAGGGAACCAACAGGTGTGCTGGCAAGCTGTAATCCAGTGCCACCCTTGGTCAAACAGTACGTGAATGAGGTACATCAGATCATCCAAGACGCTAAAGACCGGTCAATAACTGTTACCGAAGAGAGCAACACTTCAAGAGAGGTCACTCCAATGGACACAAGCTCCAGATCTCACATGATAGCAAGACTTCACTCAGAAGAATCTAGAAGCAAGGGACGAACAAATCAAAATGTGAGCGAAGTGTTAACGATTTCCAAGCCTGTGGAACCTTACGTACCAACCGGACCACAAGTCCAAACCATGAAACCAACCATTAGTCTCTTCGACTACCCACAGAAGACGGGACCTCAGGAACAGAACGAAGGGCAAAGGAAGGCTAAAGAGATCATGACCGGATTCGTTAACCCTTTCAAAGTGATATTGCCAGATTTTGAGGCCATGGACATCGGTGGCAATAACAAGACTGGACAATCCAAAGCCGGTATTGATAAGATAAATGAAAATTGGAAGAAAGCGTCGTCGGATGTCATAGAGGAGACTAAGAGTTCTGCTCAAGAAATGCAGTTCGTCGAGAGCGACAGTGACCGCGAAGACCCCACTCCTCTGAGACAAAAGATTGAgggcaagaaaaaaagaaaaaggagaaagaaaactgaaattcAAGAAGGGGATGTCCCATCGACtccaatagaaaaaaagatcaaGTCTGAAgctgttgatgttgatgatgatggtcataACCCTTCGTATGAAGTCATCACCAAAGTCAAGAAAGAATTCGTTCCGTTTGACTACAACCCTGCAGAATACAGCAAACTAGAAGGTAATCCAGAACAGTCAAAAACAGACATCTTCAACCCTTACGACcaatcaaaaaaaaagaagAAGGTGAATGGCCCTCGATCTAAAGTCCACATGAAGGCAGGACAGCGAAGCATGACTTATTCCCAAAACAGGGAAACGCAAAAGAAGCAGCAATGGCCAACAAGATAGACGATGAGGTCAAGAAACTGTCAGACTAATGTGTCTTCGTGTAATAGTCCTTGGGAATTTAATCACGTGCCAATAGCCTCCAATAGCCCCAACTAATAGTTACACAATATTTTATAACTGTTTTTATTAAGGGCGTTCATCATGGGCTTATTTTTGATTTGCAAACTATAAAGGAAACCTATTTCCGCTTCTTCAAACTATTATAGTTCGTAAACGTTGTCAGTGCGTCTCCTTTTTATTACCGtttgttatttttaattttccacATGGATTTATAACGCGAAGCAATTATTAGCTTATTTCCTAGATTTCTATCAAGAATAACTTATGATGAACGAAAATCTAAACAGAAAAACCTTCAACATCCGAACtgaaaagagcgggaaaagTTTACTTCCGGTAATTCATACACGGGTCTATAGAAATAACccaaaaaggcgggaaaaatCCTCGTGATTTTTTCCCAGGTGAATACTGTACAAATCACTTAGGAAGAGGAGAAGAAGATCACATTAAACATTTTCTTCGTAGTTTGCTCTGTTGCCCAAAATTCATTCATGAATGGGATAAATGGCGcctaaaaatgaaggaaaagaaaaagaaagaaacgaaggaaaggaaaaagagaaaagtatAGAAGAAAGGAGAGCGAAATATGGAAAGGAAGATCGAAGCAAACTTTGctattgaaaataaagatatGAAGGAAGGGGGGGAAACGAACgtgagaaaagaagaaagccaaaacgaaaagaaaagataaccaacaaacaataGCAACAAAGGAAAACGTTTCGATCTGGTCCAACTAATTGTCCGAACCATTTGCTGTAAAGATTTAAATTCTCGGATTTTGTCAGACCCAGTTTTTCCTAGCCTGAGAAAAATTTTTCCCATTTATAGAGTATTTTCGGTTGAATGAATAGCTTCTGCTTTCAACCAACATTCCTTAATCGTGCATAAACAAAACCAATCCGTGCGTCAAAAAGGTCAATAAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P56960	Exosome complex component 10 OS=Mus musculus OX=10090 GN=Exosc10 PE=1 SV=2
D4A1X2	Exosome complex component 10 OS=Rattus norvegicus OX=10116 GN=Exosc10 PE=1 SV=2
Q01780	Exosome complex component 10 OS=Homo sapiens OX=9606 GN=EXOSC10 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003985 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01612 all species →	DNA_pol_A_exo1	3'-5' exonuclease	Domain	Interproscan
PF08066 all species →	PMC2NT	PMC2NT (NUC016) domain	Domain	Interproscan
PF00570 all species →	HRDC	HRDC domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR049559 all species →	Domain	Rrp6-like, 3'-5' exonuclease domain	Interproscan
IPR002121 all species →	Domain	HRDC domain	Interproscan
IPR044876 all species →	Homologous_superfamily	HRDC domain superfamily	Interproscan
IPR045092 all species →	Family	Exosome complex exonuclease Rrp6-like	Interproscan
IPR002562 all species →	Domain	3'-5' exonuclease domain	Interproscan
IPR010997 all species →	Homologous_superfamily	HRDC-like superfamily	Interproscan
IPR012588 all species →	Domain	Exosome-associated factor Rrp6, N-terminal	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12124 all species →	POLYMYOSITIS/SCLERODERMA AUTOANTIGEN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0000176 all species →	Cellular Component	nuclear exosome (RNase complex)	Interproscan
GO:0000467 all species →	Biological Process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0003727 all species →	Molecular Function	single-stranded RNA binding	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0071035 all species →	Biological Process	nuclear polyadenylation-dependent rRNA catabolic process	Interproscan
GO:0071036 all species →	Biological Process	nuclear polyadenylation-dependent snoRNA catabolic process	Interproscan
GO:0071037 all species →	Biological Process	nuclear polyadenylation-dependent snRNA catabolic process	Interproscan
GO:0071038 all species →	Biological Process	TRAMP-dependent tRNA surveillance pathway	Interproscan
GO:0071039 all species →	Biological Process	nuclear polyadenylation-dependent CUT catabolic process	Interproscan
GO:0071040 all species →	Biological Process	nuclear polyadenylation-dependent antisense transcript catabolic process	Interproscan
GO:0071044 all species →	Biological Process	histone mRNA catabolic process	Interproscan
GO:0071051 all species →	Biological Process	poly(A)-dependent snoRNA 3'-end processing	Interproscan
GO:0006139 all species →	Biological Process	nucleobase-containing compound metabolic process	Interproscan
GO:0008408 all species →	Molecular Function	3'-5' exonuclease activity	Interproscan
GO:0000166 all species →	Molecular Function	nucleotide binding	Interproscan
GO:0044237 all species →	Biological Process	obsolete cellular metabolic process	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	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
K12591	RRP6, EXOSC10; exosome complex exonuclease RRP6	EC:3.1.13.-	Messenger RNA biogenesis	ko03019	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 Condylactis gigantea 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 Condylactis gigantea, 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 →