Gene detail

Detailed information of ENSLDHP00000049531.1 in Eunicella cavolini

Genomic Location: chr9:17723675...17731686
NR annotation: XP_028409116.1, staphylococcal nuclease domain-containing protein 1-like [Dendronephthya gigantea]
Species Eunicella cavolini · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSLDHT00000054398

ATGGCTCAACCAACCCCAGTTTTACACCGAGGAATTGTTAAACAGgCTCTCTCAGGAGACAGTGTTATCATCAGAGAACAACCAAGAGGTGGTCCTCCACCAGAAAAAAATCTAGGGCTTTCCAATGTTACTGCACCAAAATTATGTCGACGACCAACCATGGCAGTGTCTGCCGAGAGTCGAGATGAGCCATGTGCCTGGGAGAGTAGAGAGTTCTTAAGAAAACAATTAATTGGAAAAGAAGTTCTTTATTCAGTTGAATACAATGCACCAGGTTCCAATAAGCATTATGGATGCGTGTATCTCAAGAatggtGATCAATTGACAAACGTCACAGAGCAAAGTGTTATGGAAGGTTTGCTGGAAGTCAAGAGAGGAGGCATTAAACCTAGCGATGACCAGAGCAAATTAATTGACTTGGAAGAAGCAGCGAAAGCTGCCGAGAAGGGAAAATGGGCAAAAGACGCAAGCACGCATGTAAGGGATATTCACTGGTCTATTGAGAACCCAAAACATTTTGTTGATGCCAATTCTGGAAAGGAATTTGACGCTATAATTGAGCACGTTCGAGATGGTTGTACAGTAAGAGCTTTCTTGTTGCCTGATTTCTATCATGTCACTGTCATGATGTCAGGGATTAAGACTCCGATGTTCAAACGAGATGGCCCTAACGAAAATCCTGAACCTTTTGCTGAAGAGGCAAGATTTTTCACAGAATCAAGATTACTTCAAAGAGAAGTAAAAATACGTTTAGATGgAGTATCAAACGCAAACTTCCTTGGGACTATAATACATCCGGCTGGCAGTATATCTCAGTTGTTACTCCGTGAAGGATTTGCTCGTTGTGTTGACTGGAGTATGTCAGTGTTGCCGTCAGGTCATGATGTGTATAGAAGTGCGGAAAGGTTAGCAAAGCAAATGAAGAAACGAATATGGAAAGATTATGAACCATCAACGCCAAGTGTTGCCATTGACAATAAAGAATTTACGGGCAAGGTAATAGAAGTGATAAACGCTGACGCACTGGTTGTTAAAACCCCGGATGGAACCAACAAGAAATTATTCCTCTCCAGTTTAAGACCTCCCAGGTTACCAACACGTGAAGACGGTGCTCAGGAACAATCCACTGGCAATAAACGAACACGGCCACTTTATGAAGTTCCTTATATGTTTGAAGCTCGAGAATTTATGAGAAAAAAATTGATTGGGAGGAAGGTTAATATCTGTGTTGACTATATTAAACCTCCAAGTGATGGCTACCCTGAGAAAACTTGCGCCACTGTCACCATAGGAACAATAAATGTCGCTGAAGCTTTGATTAGTAAAGGTCTAGCGACAGTAATCCGTCACAGACAGGATGATGATCAGAGATCTTCACATTATGATGAACTGTTGAGTGCAGAAACAAGAGCAGCCAAGAATGCCAAGGGAGTTCACAGTAAAAAAGATGCTCCAACACATCGTATATCTGAAGTATCAGGTGATGCTTCAAAGGCCAAACAATTTCTTCCATTCCTTCAGCGAGCTGGGCGTACTAGCGGGATTGTAGAGTTCGTAGCAAGTGGTTCAAGACTCCGAGTATATCTACCTAAAGAAACTTGTCTCATTACCTTGTTATTGGCTGGTATTGAGTGTCCACGCATGCAGTCGAATGGGAACCAAGGTCGTGTGATTACGGGCGAGCCTTTTGGAGAAGAAGCGTATAATTTTACGCGGGAACATTGTTTACAGAAAGATGTTGAGATTGAAGTGTCAGCTTGTGATCGAGTGGGAAATTTCATTGGCTGGTTGTTTATTGATGACCTCAATTTGTCATTGTCTTTAGTTAAGGAAGGTCTATCAAGCGTTCACTTCAGCGCCGAGAAAAGTCAGTTCTACAGTCAACTTGTCGTCGCGGAAGAAAATGCAAGAACTTCAAAGTTGAAAATCTGGGCGAACTACGAGGAACCTAAAACTGTCGAAGTTGTAGATGACGTTTCTGAAAGACAATGCAAATATGAAAAAGTTGTAATTACAGAAGTTGAAAGTCCGCAATGTTTTTGGGTCCAACATGCAGATAGTGCGAGTGAGATCGAGCAAATGATGGAAAGACTAAGAACTACTCTAGCTGCGAATCCACCAGTGCCAGGCTCCTACACACCGCGCCGTGGAGAACTATGTGCTGCATTGTTCGCTGATAATAATTGGTATCGAGCCAGGGTGTTAAAAACAGCTGGACCTAAAGAAATAACTGTGATATATATGGACTTTGGAAATATCGAAGTTTTACCAATATCAAAGATACGAGCGTTGCCTCACGAGTTTACTAGCATGAAACCTCAAGCTGTGGAATATAATTTGGCATTAGTACGAGAACCTAATGATGAGGAGATGAAGTATGACTTGAGCGCTGTATTTAAGAACAAAATATTGAACAACATGTTCTTGCTCAACAAGGAATACAAAATTAATAACCAGGAGTATGTCACTCTCACAAACCCTGAAAGTAAGGAAGATATTGGTCGATCGTTGATTGCTGAAGGATTGGCATTAGTTGATAAACGCAATGAGAAGCGTTTCCAAAAGATGGTCAAAGATTACCTTGGAGCGCAAGACAGCGCCAAGAAAAGTAGATTAAACATGTGGCGATATGGTGACATTACTGAAGATGACGCAAAGGAATTTGGATATCCAACGAAATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5REU4	Staphylococcal nuclease domain-containing protein 1 OS=Pongo abelii OX=9601 GN=SND1 PE=2 SV=1
Q863B3	Staphylococcal nuclease domain-containing protein 1 OS=Bos taurus OX=9913 GN=SND1 PE=1 SV=1
Q7KZF4	Staphylococcal nuclease domain-containing protein 1 OS=Homo sapiens OX=9606 GN=SND1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004839 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00565 all species →	SNase	Staphylococcal nuclease homologue	Domain	Interproscan
PF00567 all species →	TUDOR	Tudor domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002999 all species →	Domain	Tudor domain	Interproscan
IPR035437 all species →	Homologous_superfamily	SNase-like, OB-fold superfamily	Interproscan
IPR016071 all species →	Domain	Staphylococcal nuclease (SNase-like), OB-fold	Interproscan
IPR047386 all species →	Domain	Tudor domain-containing protein 11, Tudor domain	Interproscan
IPR016685 all species →	Family	RNA-induced silencing complex, nuclease component Tudor-SN	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12302 all species →	EBNA2 BINDING PROTEIN P100	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004518 all species →	Molecular Function	nuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006402 all species →	Biological Process	mRNA catabolic process	Interproscan
GO:0031047 all species →	Biological Process	regulatory ncRNA-mediated gene silencing	Interproscan
GO:0031332 all species →	Cellular Component	RNAi effector complex	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
K15979	SND1; staphylococcal nuclease domain-containing protein 1	-	Viral carcinogenesis	ko05203	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 Eunicella cavolini 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 Eunicella cavolini, 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 →