Gene detail

Detailed information of ENSZOFP00000011771.1 in Porites cylindrica

Genomic Location: chr13:23489837...23499261
NR annotation: no NCBI-NR hit recorded
Species Porites cylindrica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSZOFT00000015056

agaaaatggcgACCAAGGTTGTGGTATTATAGCTGTGGATTTATGATCGTTTTATTTTAATTCTGACCGTttatttgttgaaaaagaaaagaagataaCATTGATATTCCTTCAAAATGGTTCTCGCGGACTTAGGACGTAAAATAACAACAGCACTTCGCTCTTTGAGCAATGCTACTGTTATCAATGAAGAGGTCCTTGGTGCTATGCTTAAGGAAGTATGTGCTGCATTGCTGGAGGCTGACGTTAACGTGCAGCTTGTTAAAAGACTCAGGGAAAATGtcagATCTGCCATAGATTTTGATGACATGGCTGCAGGATTAAACAAGAGAAGAATGATTCAACATGCTGTGTTCCAGGAGCTTTGCAAGCTTGTTGATCCTGGTGTGAAAGCTTGGAATCCCACTAAAGGAAAACAGAATGTTATCATGTTTGTTGGTCTACAGGGAAGTGGAAAGACTACAACGTGTAGTAAGTTAGCATACTTTTATCAGAGGAAAGGTTGGAAGACTTGTCTAATTTGTGCAGACACGTTCAGAGCAGGTGCATTTGATCAGCTCAAACAGAATGCCACTAAAGCGAGAATACCATTTTATGGAAGTTACACTGAAATGGACCCTGTTGTCATAGCTCAAGAAGGTGTAGATAAATTtaaacaagaaaactttgagatAATCATTGTAGATACCAGTGGACGACATAAGCAAGAGGAGTCACTTTTTGAAGAAATGCTTCAAGTCTCTAATGCAGTTAATCCAGACAATGTTATATTTGTGATGGATGCAACAATAGGTCAGGCATGTGAGTCACAGgCCAAGGCCTTCAAAGACAAAGTGGATGTAGCATCAGTCATTGTTACTAAATTAGATGGACATGCGAAGGGTGGAGGTGCATTAAGTGCCGTTGCAGCCACCAAAAGTCCTATTATCTTTATTGGTACTGGAGAGCACATCGATGACTTTGAACCTTTTAAAACCAGGCCTTTTATTAGTAAATTATTGGGAATGGGAGACATTGAAGGCTTGATTGACAAAGTTAATGAACTGAAGCTTGAGGACAATGAAGAACTTATTGACAAACTTAAACATGgaGTCTTTAGTTTACGAGACATGTATGAACAGTTCCAGAACATCATGAAGATGGGACCATTTGGCCAGATCATGGGTATGATTCCAGGCTTTAGCAGTGACTTTTTGTCCAAAGGAAATGAGCAAGAGTCTATGGCGAGATTAAAGAAACTCATGACAATTATGGACAGCATGAATGATGAAGAGCTCGACAGTCCAAATGGTGCCAAACTGTTTTCACGCCAACCAGGAAGATGCACACGTGTTGCACGTGGGTGTGGTGTGTCAGTGCGTGAGGTGCAGGAACTTTTGTCTCAGTACACAAAATTCGCCGCGATGGTTAAAAAGATGGGAGGAATAAAGGGCTTGTTTAAAGgTGGTGACATGAGTAAAAACGTAAATCCATCACAGATGGCCAAACTTAATCAACAGATGGCTAAAATGATGGATCCCAGAGTTCTTCAACAAATGGGTGGAACTCAAGGCCTTCAGTCCATGATGCGGCAGTTTCAACAAGGAGCGGCTGCTCACTCCACAGGGAGCAGAAAATAaccaacaataaaaacttcCATAATAAATAAGACTACAACAACAAGAGTaacgaaaaataaaaaggaCAGTTTAAGAACCAAAATTTTCAGAAGTAGGTCACAACTTGAGGGTGGtttgttttgaatgtttttttttttttttgctcttaacTCTCCACTTGAATTTGCAAGGCTTAACCCGGAAGTGAAGGTATAAAGCAGCAAATTATAGCGCTTAAGAGGAAACTGCTTTTTGGAGACGTAAAACAGTGCTTTTGCAACTGTGTTTTTTGACAAAACGCAAAAGTCTGTAAACTACCCGTAAAGTAGACTGCTGTTGTGTTAAACTGGTCGTTGACCGTTCTTAGAAGTCTTACTCTCTTTAAACTGTGTTGGTTTTACTGATATTAATTTATAACAAAATGAATCCTGATTCAATTTCCACGAGAAATTATTTGTTCATGTTGAAAATCAAGATCAGGTTACAATAGGTATAATCTACTCCCTTATATTgccttttattttcatttctttgcaaTGAAAATATCTTAGGTTAATTGGCACTCTCTACCATTTTTTCATCAAATGTAAATTACCTAAAATTTAGTAGAtattaaagtcaataaagtGATCAGAATATATTATTGTAGGcgtatttttatcttttagtTACAGATGATCAGTTCTTAATGGCGTTATGATTATTAAAACCTACATAAAAAATTGGGAATAGCCTacttttggtttttaaaaatcCCAAAACAACTTATCTCAGGAGACGTAATTGCCCATATGAGGTGGGGAgcagaaaaggttaaaaaatgcaaaagattatTACTAATTAACTGAAAGACACAAAATACTGGTAGCGTTAATAATTGTGTAACGCTTTAGACCTTAACAAAAGATTTGATTTAATGGCAAACCTAAACTGAGTTCGAT

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003673 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02881 all species →	SRP54_N	SRP54-type protein, helical bundle domain	Domain	Interproscan
PF02978 all species →	SRP_SPB	Signal peptide binding domain	Domain	Interproscan
PF00448 all species →	SRP54	SRP54-type protein, GTPase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR013822 all species →	Domain	Signal recognition particle SRP54, helical bundle	Interproscan
IPR022941 all species →	Family	Signal recognition particle, SRP54 subunit	Interproscan
IPR036225 all species →	Homologous_superfamily	SRP/SRP receptor, N-terminal	Interproscan
IPR036891 all species →	Homologous_superfamily	Signal recognition particle, SRP54 subunit, M-domain superfamily	Interproscan
IPR000897 all species →	Domain	Signal recognition particle, SRP54 subunit, GTPase domain	Interproscan
IPR006325 all species →	Family	Signal recognition particle, SRP54 subunit, eukaryotic	Interproscan
IPR042101 all species →	Homologous_superfamily	Signal recognition particle SRP54, N-terminal domain superfamily	Interproscan
IPR004125 all species →	Domain	Signal recognition particle, SRP54 subunit, M-domain	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11564 all species →	SIGNAL RECOGNITION PARTICLE 54K PROTEIN SRP54	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:0005786 all species →	Cellular Component	signal recognition particle, endoplasmic reticulum targeting	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006616 all species →	Biological Process	SRP-dependent cotranslational protein targeting to membrane, translocation	Interproscan
GO:0008312 all species →	Molecular Function	7S RNA binding	Interproscan
GO:0030942 all species →	Molecular Function	endoplasmic reticulum signal peptide binding	Interproscan
GO:0048500 all species →	Cellular Component	signal recognition particle	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
K03106	SRP54, ffh; signal recognition particle subunit SRP54	EC:3.6.5.4	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 Porites cylindrica 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 Porites cylindrica, 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 →