Gene detail

Detailed information of ENSKFPP00000020745.1 in Condylactis gigantea

Genomic Location: chr3:11580748...11585451
NR annotation: XP_031565818.1, nucleolar protein 9-like isoform X2 [Actinia tenebrosa]
Species Condylactis gigantea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSKFPT00000022397

GAAAGAAATCGTACCGCTGCAAGTCTTGTACACGTTGTCTGTGCACTAGACGAAGACACTTTGAGTTATTTTAAACGCGTTGAAAGTGTGATCGAAGATGACGACTTTGAAGACGAGGAATCGAAGAAACTCTTCGTTGAAAATGTCTTTAAACAAGTTGAAGATAAGGAGCTTCTTCTCGCGTGTGATCAAGCCATGAGCAGAGTATTAGAGAGACTCTTGGACCATTTAAATGATGCCCAGACAAAGAAAATCTGGAGGAACTTGTCTAGTGATTACGAAGTTGTAACCTGTGACCGGTTTGGAAGCCACGTCGTACAGAACCTAGTCAACTTAGTCCCAAGAACTATTCGCGCTGAGCGTATTAAAGTAAAGGAAGTggacaagaaagaagaagaagaaagtttATCCATGGAGGAATTGTTTTTATCCTACTGTACTTTTGTGGAGGATAATGTGAGTGATTTGATCGAAAATACGTACGGATCGCATATTGTTCGTGCTGTCTTGGAGATACTGGCTGGTGTTCGTGTGGCTGATGAAGTGCAAAGGAGTAGGAACTCCAGGGGTTGCAGGGGAAAGGCTTTTAAGATAGTCTTTTCCATTAATTTTTCAGTTGGACAAGCCTTTGGATTCACAACTACCATCACTGCATCCCAGACCATTGCTGTGCCAGACAGTTTTGTCTCAGCACTTGAACAACTGGCCGTGAGGATAATGAAAATGGACTTGAAGAAACTTGTTTTTAGCCATCTTAGTTGCCCAGTATTGCAGACTCTCTTACTTGTTCTGCATCAGAAGAATCCCATACTCTGCTCAAAGCTGTGTAAGAAGATAATGAGTCAAGTGGAGTTtagtaaaactgaaaaaatggaagaggAAATGGAAGAgtatCAGATTCCTTCACTGTTTTCTCATGATGTTGGCAGTCATCTAGTGGAAAAGATCCTTCATGTCATATCTCCAAAAGGACACCAGAAGCTTTATAACCATTATTTTAAAGGTCATTTAGAGGCACTAGCACTACACCATGTGGCTAACTACCTGGTACAACATCTACTGGCAAGCACTACTGACCCCACCCTGGGTGAACAAATGCTTGATGAACTGCTTGGTGAAATAGAGGAGTTGTTATCAGCAGGACATGATGGTGTGGTTGCCAGAATGGCTGAGCTATGTGTAAGACTGGAAGTCAAACAACAAGAGATACAGCAAGCAATACATGTGGCTTTCCACTGCACTgggacaaaagaaaagaagacctGTTCAACTCTTCTCTTGTCTATGACAACCTATGATATCTTCTTTGGAGGAGTTAGTGAAGAGAGCAAGCAAACAGAtgcagaaaataaagaaaagcaatCTGAAAAACATGAGGAACTCCCAACACTCAAGCACATCAACTTTCATGGATCGGTTCTCCTGAAAACACTCCTTGAATTTCAGGATCCCAAAGTGTTTGTAGACAGCCTGCTTGGCATGAGTGTGGATGAGCTTGCAAGAGTCTGCCAAGACCCAATGGGGTCCAGAACTGTAGAGGCGTTCTTTATGAGTAAAACAgttaaagagaaaaagaagaacaaattTTGTGACAAAATTAAGGGtgaatttatgaagctttcttGTGACAAACAAGCAAGCCATGTTGTAGAAACATGCTGGAGTCATGTGGACAAATCACACAAGGAGCTGATCCTGCAAGAACTACTCCAAGACGAGCACAAACTCACCAAGGATTTCTTTGGTAGCAAAGTAATCAAGAAATGTGGGCTTGAGCAAttcaaaaggaagaaaggtaaCTGGATTGAGAGAGAAGAAAAGGCAAATAAAAAGAGGCAGATGTTCGACGAAATTCTCCATGAAGATGAaagtaagaaaaagaaggtGAAAAGAATGAAGGAGGAACAGCAAGAAAGATCTGTCAAGTCCTACGCTGCAGAAATGGCTGTTTTAGGATTTGATGCGGCTAGGAACTTCGAAGACAACAAGTTTGAGGTAAGTGTACAACTGAAACAAGATGATGATATAGATGTTATATTTCGAAGCAAGAAGACACCAAGAGGGAATACTTCTACTACAGATGACGTTGCTACACaaccaaagaagaaaaagacaaagaaatga

Transcript

ENSKFPT00000022397

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
B2W8X8	Nucleolar protein 9 OS=Pyrenophora tritici-repentis (strain Pt-1C-BFP) OX=426418 GN=nop9 PE=3 SV=1
E3RP32	Nucleolar protein 9 OS=Pyrenophora teres f. teres (strain 0-1) OX=861557 GN=nop9 PE=3 SV=1
A1CKL4	Nucleolar protein 9 OS=Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1 / QM 1276 / 107) OX=344612 GN=nop9 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006261 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00806 all species →	PUF	Pumilio-family RNA binding repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001313 all species →	Repeat	Pumilio RNA-binding repeat	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR040000 all species →	Family	Nucleolar protein 9	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13102 all species →	NUCLEOLAR PROTEIN 9	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0000056 all species →	Biological Process	ribosomal small subunit export from nucleus	Interproscan
GO:0000447 all species →	Biological Process	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0000472 all species →	Biological Process	endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0000480 all species →	Biological Process	endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0030686 all species →	Cellular Component	90S preribosome	Interproscan
GO:0030688 all species →	Cellular Component	preribosome, small subunit precursor	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
K14790	NOP9; nucleolar protein 9	-	Ribosome biogenesis	ko03009	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 →