Gene detail

Detailed information of ENSQNNP00000027338.1 in Candelabrum cocksii

Genomic Location: chr9:689224...721597
NR annotation: XP_047144370.1, eukaryotic peptide chain release factor GTP-binding subunit ERF3A [Hydra vulgaris]
Species Candelabrum cocksii · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSQNNT00000028403

CAAATTTAACGATGCCATGCACGCCGCTGATGGAGTAAGCGGCGAGATCGTACCCAGCTGCTTGGAGCACTTCAGGATTAGTGACGTGAGTCTCTTGGAGCACGAGTTTTCTCGATGAGTTTGAAGAAcaaagtcatgaaataatgatttggacatgcgtattgaatatttgttaagaatcaccacaacaaatacaagaatAGAATTttttcgtcagcggtggaaatcgGAACAagtacaaaaatactcaaacaatcggtattccctgagtataagCTAAATATTTCAACTTACACAATATGTCTAATTCATGTAACCAAGCCACTGTCGGAATGTCAAGTTTAAGTGTTGGAGCAAAACCTTTTGTACCGAATGTCAACGCAATAGCCTTTGTTCCTTCCTACGCCAAAGAACCACTTGGCCTGGAAACACCTACAGCTGAGACCAATGAATCTTCTCCAGATGAAACATCTGATAACTGGGACGACGCTTCTATTGAGGAACTTGATAATATTGAAGAACATAGTCTTCCATCGAAACCAGAACAAAAACCTGACTTATCTCGAGAAGTTGATACCCCGTCgcctgtttcaaataaatctaaaaaagaatcaaagccTCCATCTCCTGAACCTGAGATAGACGAAAAAGATAACATAAACATAATCTTCATTGGACACGTTGATGCTGGTAAATCAACAATTGGAGGACAATTATTATTTCAAACAGGTCAGGTCGACAAACGAACtcttgaaaaatatgaaagagaagcaaaagaaaagaacagAGAAACTTGGTACCTGTCATGGGCGCTCGATACAAATCTTGAAGAAAGGAACAAGGGTAAAACGGTGGAATGTGGACGAGCATCATTCGATACAGAatccaaacattttgttttgcttgATGCTCCCGGTCATAAAAGCTTCGTACCAAACATGATTGGCGGTGCTGCTCAAGCCGACGTTGCTGTTCTTGTTATCTCAGCGAGAAAAGGGGAATTCGAAACCGGATTTGAGCGTGGAGGACAAACAAGgGAACACGCGATGCTTGTGAAAACAGCCGGAGTAAAATCCCTTATAATATTAGTGAATAAAATGGATGACCCAACAGTCATGTGGAATGAAGAGAGATACAAAGACATAGTGACAAAGTTGACGCCGTTTCTGAAGAAAACTGGTTTCAAATCGCAAGAGATGCAGTTCATGCCCTGCTCTGGATTTACCGCTGCGAATTTGAAATCGAAACCTGAACCAGGCTTGTGTGATTGGTACCAAGGTCCTACATTTCTTGATTACCTGGACAAATTACCAGATTTCAAATGGCCCTCAGACAAACCGGTGAAAATTTTAGTCAGTGAGCGTTACAAGGACATGGGTACAATAGTCATTGGCAAAGTAGAGTCAGGGACAGTTCGTAAGGGTGATAGTTACACTCTGATGCCGAACAAACAATCAGTGAAGATCATTGGGATCACAGGAGCTGACGAGAACGAGAAGGCAATGTGTCGTGCGGGTGATAACATCAAATTGAAGTTGGCTGGTGTGGAAGAGGACGAGGTTCTACCGGGGTTCGTGCTCTGTCATCCCGAACATCTGTGCAATGCCGGTCATATTTTTGACGCGCAGATCGTCATCCTTGAACACAAGTCGATTATCTGCGCAGGTTACAAAGCGGTGCTTCATATTCACAACGCCGTGGAGGAAGTCATACTTGTAGGCTTAATTCATACAATTGATAGAAAAACCGGCGAGAAGAGTCAAACCAGACCTAGGTTCATTAAACAAGACACTGTCGCCGTCGCTCGGTTTAAAACTGCTAACCTCATATGCCTGGAAACATTTGCCGAGTTTGCTCCAATGGGAAGGTTCACACTAAGGGACGAGGGCCGCACGATTGCTATCGGTAAAGTTTTGACCGTCCGTCACAAAAGAGATGTCGACAAATAAGCGCACGATGCTGCAAATTGACGGACCAGAATGTGTGATGTTTGTGGTATTTTACCGAATGAAATTCAGACAGTTCTAATTTCGCGCTCATTTTCGGAATTGCAATTGTTTTATATGGAattgattttcttcttttgttcgAGCGCTCTTTGTATCTATACCCTCGTGATGAGGGGACTTGTAAAATTTAACTGAGGAAGAGCCGTATGAAACAGTGTTACCCGGACAACCATTTGTTGCAGGAATTTTTGCGAACTCAGGAATAAgttgaagaaataaaaacgtaTTTTTTCACGAATCGATgctatttattcattattcatcaaaatatataatatatatttgtttatcaaatttcACTTGTCATAAAGCGGTTGAAGGCTTGGTAAACGCAATAATACAGTGTAatcccggtaactcgaacactGGATAACTCTCACTTGTCATAAAGCGGTTGAAGGCTTGGTAAACGCAATAATACGGTGTAatcccggtaactcgaacactggataactcgaattgttttgcaatcccCTAATACTTACTCACAAAAATcgctcgataactcgaacaattttcgttggtggttcgagttaacaGGAATATACTGTATATCTCTAGTTAGTCGttaatttctttcaaataccACTCTGAATTTGCGCTTGAAGCATGGTGAC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P15170	Eukaryotic peptide chain release factor GTP-binding subunit ERF3A OS=Homo sapiens OX=9606 GN=GSPT1 PE=1 SV=1
Q149F3	Eukaryotic peptide chain release factor GTP-binding subunit ERF3B OS=Mus musculus OX=10090 GN=Gspt2 PE=1 SV=1
Q8IYD1	Eukaryotic peptide chain release factor GTP-binding subunit ERF3B OS=Homo sapiens OX=9606 GN=GSPT2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000858 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03143 all species →	GTP_EFTU_D3	Elongation factor Tu C-terminal domain	Domain	Interproscan
PF00009 all species →	GTP_EFTU	Elongation factor Tu GTP binding domain	Domain	Interproscan
PF03144 all species →	GTP_EFTU_D2	Elongation factor Tu domain 2	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000795 all species →	Domain	Translational (tr)-type GTP-binding domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR004160 all species →	Domain	Translation elongation factor EFTu/EF1A, C-terminal	Interproscan
IPR050100 all species →	Family	Translation factor GTPase superfamily members	Interproscan
IPR009001 all species →	Homologous_superfamily	Translation elongation factor EF1A/initiation factor IF2gamma, C-terminal	Interproscan
IPR004161 all species →	Domain	Translation elongation factor EFTu-like, domain 2	Interproscan
IPR009000 all species →	Homologous_superfamily	Translation protein, beta-barrel domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23115 all species →	TRANSLATION FACTOR	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003747 all species →	Molecular Function	translation release factor activity	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0018444 all species →	Cellular Component	translation release factor 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
K03267	ERF3, GSPT; peptide chain release factor subunit 3	-	Translation factors	ko03012	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 →