Gene detail

Detailed information of ENSQNNP00000017367.1 in Candelabrum cocksii

Genomic Location: chr7:501472...509247
NR annotation: XP_002161830.2, signal recognition particle receptor subunit alpha homolog [Hydra vulgaris]
Species Candelabrum cocksii · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSQNNT00000017998

CGTCAATCTATACGCCCAAACAAACTTAATTAGATAGATACATTTATCTATCAAACTATTACATgattttacatattttgtgACGTAAATAATCCACCATTTTGAATACGATTGTATGAAAACATTCGAGCAGGAAGAAGTGGTAAAAACGTGGAGTAAAAATGTTAGatttttttagcattttttctAAAGGTGGAATTGTCCTGTGGTATTTTCAAGGCACAGTTGGTAACTTCACCAATCCTATTAATGAACTTATAAGGAATGTTATTCTACAGGAACGCAGTGGAATTGAGTCATATACTCATGGCCAGCTGGCTATACAATACAAGTTAGATAACGAATTTGAACTTGTATTTGTGGTTGGATATCAGAATATTTTACGATTATCGTACATTGATAAGTTGCTCACTGACATTCAACTGGAGTTCAGAGATCGTTATAAGAATCAAATTGTTCAAGAGCAGTTTTCAACTTTTGATTTCAaagatgtttttatgaaaatactGAATGACATTGAGCAGTCGAGTCGCAGCACGAAACGCGAAATGAAGTCATTTGCTGATTCCAACAAAGCAAAGAAGATCATGAAGCAACGAGGGATATTGGAGTTGACCAATAAAAAGGATGAAAAGAAACCAAAAAAAGATGAAGATCAACCAAAGTCACCAAAAGCTCCGGCACCAGTTGAGAATATTCTTTCTTCTCCTCCCATGGTTAATGGTGTTGAAGAAATCGTTGAATTGACAGAAGATCAGTTGATTGAACAAAACAGACAGCGGTTGATTGCAGGAACGCTAAAAGGTGGACGAAAGAAAAGTCCAAAAGCGGACAGCAAGACATCATCCCCTCATTCTAAGGTGAAGAAAGTGAAAGAAGATAGAAAGTGGCTTAATGGAGGTACGATCAAAGATGCAACTGTGCTGGACTATAGTGGAGATAGTGGAAGCAAGGGAAAAGAGAATGGAGCGAGTGATGGAGTGACAGAACAAGATAAAGCCATGGTTGGTAAAATGAAAGGTGAATTGAAGTCAGTAGAAGTTGATGAGGGTGAAACGaccgaagaagaaaaaacaattaaaaataacaaaaaacctGGAGAAAATGGGAAATCGACAATGGGTGGAAGTGTGTTTTCATTCTTCAAAGGGTTGGCTGGACAAAAGGCCATCACAAAAGAAGCAATGAACCCATTACTTGATAAGATGAGAGAACATCTGTGCTCTAAAAACGTGGCAACAGACATCGCAGAGAAATTATGCAATTCAGTAGCAGCTAAGCTTGAAGGGAAAGTTCTTGGGACATTCACTGGAGTAGCATCAGCAGTCCGATCGAGTATGGAGGAATCACTCATGCAGATTCTCTCTCCCAAAAGACGTATCAACATCCTCCGAGATGTTATGGAAGCTAAAAGGAAAGGGAAGTCGTACGTTATTGTGTTTTGCGGTGTGAATGGTGTGGGCAAGTCAACGAACTTGGCCAAAaTTTGTTTCTGGCTTCTTGAGAACAACCATCGAGTTATGATTGCTGCGTGTGATACGTTTCGTTCGGGAGCTGTTGAACAACTGCGTACACACACATGCCGGTTGAAGGCTCTTCATCCTAAAACCTCCGCTAATGACCCAGAGAAAGTATTTTTGTACGATAAAGGTTACGGGAAGGACGCTGCCGCTGTTAGCTTGGAGGCTATCAATCTAGCTAACGCCTTGAACTGTGATGTTGTGTTGGTGGATACTGCAGGGAGGATGCAGGACAATGAACCACTAATGAGGTCGTTAGCCAAGTTGATCAAAGTAAACGAACCGGACCTTGTTCTGTTTGTCGGTGAAGCGTTAGTTGGTAACGATGGAGTTGATCAGCTTCGTAAGTTCAACCAGGCGTTAGCTGATAACTCTGATATCGAGAATCCGCACCTTATTGATGGTATTGTTCTCACCAAGTTTGATGCCATCGATGATAAGGTGGGTGCGTCCATATCCATGACATACGAAACTGGTCAGCCGATCGTTTTCGTTGGCACTGGTCAAACGTACACTGATTTGCGCAACTTGAATGCGAAGGCTGTAGTAAAGGCTTTGTTGTAAGTCCGTGTGACCAAGAATCAAAGATGaattcatgtttttaaaaacaaatttgtatGTGGTATAATATGTTATTTATTAGTgatgttgttttattatgaatatgaACGCGAGTTAATCTCAATTATTCACCGTATTtgagaatatatatataattttagtTTGGTGATATCTTTAACATGGATACGCTGGAAAGAATAATAGTAGAATAAATTAGCATATATTTAGAATGTAGTTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9U5L1	Signal recognition particle receptor subunit alpha homolog OS=Drosophila melanogaster OX=7227 GN=SrpRalpha PE=1 SV=2
P06625	Signal recognition particle receptor subunit alpha OS=Canis lupus familiaris OX=9615 GN=SRPRA PE=2 SV=2
P08240	Signal recognition particle receptor subunit alpha OS=Homo sapiens OX=9606 GN=SRPRA PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006229 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00448 all species →	SRP54	SRP54-type protein, GTPase domain	Domain	Interproscan
PF02881 all species →	SRP54_N	SRP54-type protein, helical bundle domain	Domain	Interproscan
PF04086 all species →	SRP-alpha_N	Signal recognition particle, alpha subunit, N-terminal	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR000897 all species →	Domain	Signal recognition particle, SRP54 subunit, GTPase domain	Interproscan
IPR042101 all species →	Homologous_superfamily	Signal recognition particle SRP54, N-terminal domain superfamily	Interproscan
IPR013822 all species →	Domain	Signal recognition particle SRP54, helical bundle	Interproscan
IPR011012 all species →	Homologous_superfamily	Longin-like domain superfamily	Interproscan
IPR007222 all species →	Domain	Signal recognition particle receptor, alpha subunit, N-terminal	Interproscan
IPR036225 all species →	Homologous_superfamily	SRP/SRP receptor, N-terminal	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43134 all species →	SIGNAL RECOGNITION PARTICLE RECEPTOR SUBUNIT ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0006614 all species →	Biological Process	SRP-dependent cotranslational protein targeting to membrane	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005047 all species →	Molecular Function	signal recognition particle binding	Interproscan
GO:0005789 all species →	Cellular Component	endoplasmic reticulum membrane	Interproscan
GO:0006605 all species →	Biological Process	protein targeting	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0045047 all species →	Biological Process	protein targeting to ER	Interproscan
GO:0005785 all species →	Cellular Component	signal recognition particle receptor complex	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	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
K13431	SRPR; signal recognition particle receptor subunit alpha	-	Secretion system	ko02044	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 Candelabrum cocksii 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 Candelabrum cocksii, 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 →