Gene detail

Detailed information of ENSLDHP00000043304.1 in Eunicella cavolini

Genomic Location: chr7:2398875...2418825
NR annotation: CAB3977006.1, vigilin-like [Paramuricea clavata]
Species Eunicella cavolini · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSLDHT00000047443

ATGCCAGATTATTTAGGGAAAGACCAAAGGAAAGTCAAAGGAGACGACGATAAAGAGGAAAAACCGTTTCAAGCTCTTGATGAAGGAGATATACAGTTATTAAAAACTTATGGCGCAGGATCATACAGCAAGGCAATTAAGAAGGTTGAAGAAGACATAAAAAACTCATTGAAGAAAGTCAATGAACTAACTGGGATAAAAGAATCTGATACAGGGTTAGCTCCACCTGCATTGTGGGATTTAGCTGCAGATAAACAAGCTCTACACAGTGAACAACCACTTCAGGTTGCTCGGTGTACAAAGATAATCAATGCGGACACAGATgatgcaaaatatataataaatgtcaaacaatttgcaaaatttgttgTTGATTTGGGGGACCAGGTTGCCCCAACAGATATTGAGGAGGGCATGCGAGTTGGTGTTGATCGTAATAAATATCAGATCCATATTCCACTTCCTCCAAAAATTGATCCAACAGTTACCATGATGCAGGTGGAGGAGAAACCAGATGTTACTTATTCCGATGTCGGTGGATGTAAAGAGCAAATTGACAAATTGCGTGAAGTCGTTGAAACACCTATGTTACATCCTGAAAGATTCGTGAACCTTGGTATTGAGCCACCTAAAGGAGTGTTGTTGTTTGGACCTCCAGGAACTGGAAAGACGTTGTGTGCCCGAGCTGTAGCGAACAGAACTGATGCTTGCTTCATCAGAGTGATCGGATCTGAATTAGTACAAAAATATGTGGGAGAGGGAGCAAGGATGGTGAGAGAGTTGTTTGAAATGGCTCGAACCAAGAAAGCTTGTATTATCTTTTTCGATGAAATCGACGCCATTGGAGGTGCTAGGTTTGATGACGGAGCGGGCGGTGACAACGAAGTTCAACGAACAATGTTGGAACTTATTAACCAGTTGGATGGTTTTGATCCAAGAGGAAATATCAAAGTATTAATGGCTACTAACAGACCTGATACATTAGATCCAGCATTAATGAGACCAGGTCGTTTGGATCGTCGAGTAGAGTTCAGTCTTCCTGATTTAGAAGGCCGCGCGAGTATATTCAAGATCCACGCGAGATCTATGAGTGTGGAACGCGACATTCGATTCGAACTTCTTGCAAGACTTTGTCCTAACAGCACAGGCGCTGAAATCCGAAGTGTCTGCACAGAGGCTGGAATGTTCGCCATTCGAGCGCGAAGGAAGGTAAGTATATATCGGATTGGCACTGTAGATTTTAAATTGAATAATATGAACGGCATTGGTTTAACGAACGGCAGCGGTGAAGCTGCAGACTTCCCCCATCAGAATAACAAGGATTTGGATACTGAAGGCTACACACCGACCTACGATGAAGCATTTCCCGAACTGCCCGTCTCAAACGCTCCGATCGTCCGAAATCCTGGCCCGGCTAAACCGACGAGTTATTCAGGCTCTATGCAAGCCATTCGCGCTAGCACAATTACACAGGTTTTCCGGATCCCCCTTGAAGATGTTACAGCAAAACCATTCGGTGATTTTGGAGACGTGCGTCAGAATATGTGTCGCGATGTGTTTGCCAAGACTGGAGCCTCGATTGAAATGAGTTATGCAAAGGACAAGAGTTTGAACATCCTAGCAACTGGAAAACCTAATCAAGTGGCAATGGCAAGGAGAGAAATCTTGAAAAAACTGCAAACACAGGTTAGATACGAGTTGCCAATCCCTAACGAACATCACAAGTTTATCCTCGGCAAAGGTGGAAATAATCTGAAACAACTGGAAGCAAATACTGGAACACACATCACAATCCCGAAGAATGGTAAAGATGTAGTCATCGTGACTGGTATCAAGGAGGATGTTGAGAAAGCTTGCCATGAAATTCAAGTAATCTCTGACAGAAAGGCAAAAGAAGGATTTGAACGACTTGAAATTCCTCGAATATACCATCCATTTATCCAAGGACCCAATCAGGAAACAATACAGAGTATTACCATGGAAACAAACACAAAGATCAACATTCCCCCACCATCGGTACAAAAGGATGAGATTACGATTTCTGGTGAAAAGGAAGGCGTAGCTATTGCAAAGGACAAGATACTTCAGATTTATAAGGAAAAGGTAAATACAATATCCATTATTGTCCAAGATTTTACTGTTCAACTGATATGTCAATGCATACAGTGCATGATGAATTTGTTTTTTAAGGAGCGACGTGTGACCACTGTATCCATTGAAGTCAAGAAATCCCAACACAAATACGTTATTGGACCCAAAGGACATGTATTACAAGAGATACTTGCAACTACAGGAGTATCTGTTGAAATGCCACCTTTGGACTCGGACGCTGAAACCATCACTTTACGAGGAGAACCAGACAGACTCGGTACGGCCTTGACCCAGGTTTATGAAAGAGCTAACAGTGTGTCATTTGCTGAGGTTGAGGCACCGCGTTGGTTGCATCGGTTTATGATTGGACGTAGTGGTGAAAACATAAAAAAGATCACCCAAGATTTGGATAAGCTCCATATTGAGTTCAGTGATGACAAGGACAAGATTACCCTGGAAGGACCACCACAACAAGTTGACCAGGCTAGGGACGCTTTGGAGACATTTGCACGTGAATTGAGAGCGACAATGGACTTTGCTGAGGTTGAAGTGGATTACCAATTTCATTCTCACATCATTGGTAAAAGTGGAGCAAACGTAAACCGAATTAAAGAAGAAACAAAGACCGCCATAATAATTCCCAATGATAGCGAGAAGAAAAGTTTGATCAGAATTGAAGGCTCTCCTCAAGGCGTGGCAAAGGCGAAGGCAGAAATATTAGAAATGGCAAAGAAACTGGAAAACGAAAGATCCCGTGATATCATCATTGAAAACAAATTCCATCGCTCGATCATCGGACCTAAAGGTGAAGGCATGCAGGAAATCCGAAAGAAATACCCCGACGTACGAGTTTCGTTCCCTGAGGCAGCAACCAAGAGTGACATTGTCAACATCCGAGGACCCAAAGATCAGGTGGACAACGTTTACGCCCAGCTGAAGAAACATAATTCTGAACTGATAGCATCCAACTACCGCATTGACGTGCCGATCTTCAAGAAGTTTCATAGGAATATCATCGGACGTGGAGGCGTGACGATTAAGAAGATTCGTGATGATACTGGAACGAGAATAGAATTACCAGCTGAGGGAAGTGACAGCAATATTATCAAGATCATTGGTCATAAAGCTCAATGTGAAGAAGCACGCCAGAAGATTCTCGCCATTCAGAACGAACTGGAAAGCATCCTTCAAGAAGAATTGACCATCCCCCATAAATTACACAACGCAATCATTGGTGCTAAAGGCCGCCTCATCCGCTCAATCATGGATGACTGTGGTGGAGTGACAATCAAGTTCCCCCCTGGTGGCTCTAACAGTGATAAGGTGATTGTTAGAGGCCCAAAAGATGATGTGCAGAAAGCCAGGAACGAACTATTACAGCTGGCCAAGGAAAAgGAACTGAGCAGCTTCACGGACACAGTAAAAGCCAAGGGCGACTACCATCGTTTCTTGATTGGTCGTGGTGGTGCCAGTATAAAAAAGGTTCGTGACAACACCGGAGCTCGAATTATTTTCCCAACGAAAGACGACGACGACCAAGAACTAATTCATATTATTGGAAAGAAGGAAGCCGTGCAAGCGGCCAAGGAAGAATTGGAGAAAGCTATTAAACAACTAGACAACATCGTAGAAGACGAAGTGAACGTGGATGTTAAACATCACCGTCACTTTGTCGCTCGTCAAGGCAAGGTCTTGACAGAAGTGATTGAGGATTTTGGCGGGGTGTCCATCAGCTTCCCCCGCTATAACAGTGGCTCTGAGCGTGTGGTCCTCAAGGGAGCCAATAACTGCGTACAAGGAGCCAAGGAAAGGATCCTTGAGATTGTTAAAGATCTTGATTCGATGACCACAATTGAGGTCGTGATAGCTCAGAAACATCATCGCTCTTTGATGGGAGCTAAAGGTGCCACTGTCCAAGGAGTCCAAAACAACTTCAACGTGCACATCCGATTCCCTGAGCGAGCAGCTGTGAACGGCACAGAAAACGGCGACCATCCGACGATGAACGGAGATAGCCCGACGCCACCAGCCGAGAATGAGGATGGTGTGAAGAAATGCGATATCATTCAGATTACTGGCAAGGTTGAACAAGCAGAACTTGCAAAACAAGCTTTACTGGATCTCATCCCAATCACCGAAACAGTAAAGATTCCATTCGACTACCATCGTTACATTATTGGCGCAAAGGGCGCCAACATCCGGGCAATGATGAACGAGTTTGACGTCAACATCCTCATCCCGCCCGCCAGAGACGAGTCTGAAGACGTCACGATCTCGGGTCCACGCGAGAACGTCGCGCAAGCCATCAATGCGCTTAATAAGCGAGTTGACGAAATCGAGGCTGAGAACGAAGACAAGGCTCTTCGTAATTTCCAACTAGAAGTGTTCGTGGAACCAAAATACCACCCGAAGATCATCGGTCGTAAGGGGGTTATCATTGACAGGATTCGCAAAGATCACGAGGTTCAAATCCAGGTCCCCTCTATGAAGTCTGATGAGGGCTCTGACGTCATAACTTTGACCGGATATGAACGCAACTGCCAGGCAGCCAAGGAAGAGATCGAGCGCATGGTCAAGGAACTGGAGGATCAAACGACAATCGAGGTTGACATCGATCCCCGAGTGCACCGTCGTCTTATCGGAGCACGTGGTGCGAGCATTCGCAGAGTGATGGATCAATTCAAAGTCGACATCCGCTTTCCACGTTCTGATAACCCTACTGGACCCGTGGCCATCAGCGGTGCTCCTGACAACGTCGATGACGCAAAAGATCATTTGTTAGTCCTTGAAGAGGAATATCTTGATGAGGAGCGTGCCCACCAAGAAGAAAAAGACCTCGTCAGCCACTACCTGAATCCACCCAGCAAGAGCAGTGATACGCAAAGTAAAGCTCACAATCCCCCTGAATTTAAAGTGCGTGATGCACCCTGGAGCAAGTCCTCGCCACCAATCTCCCCCAGTCCCCCACCCGCTGTGCTCAACATGGCCGACACTGAAGATTTTCCTGCCATTGGTAGTAGCAGCAAACCGTTTGCCGCGGCAATGCCCTGGGGACCAATACGTCGTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8VDJ3	Vigilin OS=Mus musculus OX=10090 GN=Hdlbp PE=1 SV=1
Q00341	Vigilin OS=Homo sapiens OX=9606 GN=HDLBP PE=1 SV=3
Q5R439	Vigilin OS=Pongo abelii OX=9601 GN=HDLBP PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004242 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17862 all species →	AAA_lid_3	AAA+ lid domain	Domain	Interproscan
PF21236 all species →	PRS7_OB	26S proteasome regulatory subunit 7, OB domain	Domain	Interproscan
PF00013 all species →	KH_1	KH domain	Domain	Interproscan
PF00004 all species →	AAA	ATPase family associated with various cellular activities (AAA)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036612 all species →	Homologous_superfamily	K Homology domain, type 1 superfamily	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR003960 all species →	Conserved_site	ATPase, AAA-type, conserved site	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR041569 all species →	Domain	AAA ATPase, AAA+ lid domain	Interproscan
IPR004087 all species →	Domain	K Homology domain	Interproscan
IPR048723 all species →	Domain	26S proteasome regulatory subunit 7-like, OB domain	Interproscan
IPR004088 all species →	Domain	K Homology domain, type 1	Interproscan
IPR003959 all species →	Domain	ATPase, AAA-type, core	Interproscan
IPR050221 all species →	Family	26S Proteasome Regulatory ATPase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23073 all species →	26S PROTEASOME REGULATORY SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0008540 all species →	Cellular Component	proteasome regulatory particle, base subcomplex	Interproscan
GO:0036402 all species →	Molecular Function	proteasome-activating activity	Interproscan
GO:0043161 all species →	Biological Process	proteasome-mediated ubiquitin-dependent protein catabolic process	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

No KEGG orthology assignment for ENSLDHP00000043304.1.

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 →