Gene detail

Detailed information of BRAKERKYLP00000016970.1 in Mastigias papua

Genomic Location: chr21:2916722...2933209
NR annotation: XP_020606642.1, translation initiation factor eIF-2B subunit epsilon-like [Orbicella faveolata]
Species Mastigias papua · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKYLT00000016970

ATGTCACAAAAGAAGAGGCCCCAAGACGCAGAAGGTAACAAGGAAAAATGGAACAGAGAAGAGGACCCATTGCAAGCTGTACTTATCGCAGATAGTTTCGATTCAAAGTTTTCCCCAATAACAGCTGAGAAACCTAGGACTCTACTGCCGCTAGTCAATCAGAATTTATTAGATTATACAGCTGAATATCTGATTGAAGAGGGTGTGCAGGAAATTATTATTTTCTGCTGCTCAAATGCCAGTGAAATAAGAGAATATATAAGATCTGCCAAATGGTCACAAAATAAAGAATGCTCAATACAAGTTGTTATTTCCTTATCAAACAGTTGTATGTCATTTGGTGATGCTCTAAGAGAAATTGATAGAGATGGTCTCATAAGATCAGACTTTTTGTTAGTTCCCGGAGATTTAATATCAAACGTGAAATTAAAAGAGCATATTGAAGAACACAAACAGAGACGAAAAAAAGAGAAAACCTCTGTAATGACAATGCTTTATAAAGTTGCAAAACCTAATCATTTCTCAAGGTCTCTTGAAGAGGACCATTTCATAGCAATGGATCCACAAACAAAGCGTATATTACattgccaaaaatcgttcaacAATCGGAAATTCAACTTTCCCTCcGGTCTTCTTGCCGACCGAAGGACTATTGATATTAGGTATGACCTAGCCGACTGTGGAATCGCAATATGTTCACCTACAGTTCCTCCACTCTTCACAGACAATTTCGACTATCAAACTAAGGATGATTTTGTCAGAGGAATACTCATCAACGAAGagATAATGGGGAATCAAATTCACTGTCATATTGTGAAAGATGAGTATGCTGCCAGGGTCTCAAATCTTCATATGTATAATGCTGTCAGCATGGATCTCATTCATCGTTGGGTTTATCCACTTGTGCTAGATAGCAGATCTTACCAGTACACACGTCATAATATCTACATCGACAAAGGTGTTCGTCTTGGAAGAGGTTGTTATCTTGAACAAGATGTTGTCGTGGGAGAAAATTCAAGCATTAAATCTGGATCTAGTATCTCAAAGACGGTGATTGGAAAAAACTGTTCTATAGGCGAAAATGTCAAAATTACAAATTCTTTTATTTGGGATGATGTTGTGATTGAAAATAACAGTGTCATCGATTATTGCGTGATCTGTAATGGTTGCAATGTGAAAACAAACGTCAAAATGGCAGATGTAATTGCTTCATATAAGGTTACCATCGGACCCGATCTATCGGTACCATCGGGATCAAAATTTTCAATGTTAGACCCTGAGAATTTAGCGGATCAAATGGATAGTGTGTCATTGGATGAAAGGCCAAAAGTGAAATCGGAGGTTAATCCTGACCATGTGGGTACGGAAGGTAATTGTTATCTGTGGATGAATGAAGATGCTGAAggtagtgatgatgaagatgacgaaCTTAAACCCAAGGCGACATTACGAGGGGAATTTTTCGAATTTGATGAAGAGAGCAGCGACGATGAATCAATACCATCACCATCTGCGTCACCTCCTCCAGAGCCTGGTGCACTATTCTATGCAGAGGTTCTTGAGAATGTTAGACATGGATTGGCACACAATGTCTCATCTGATAACATCATTCTTGAAATCAACGCATCTAAATTTAAGCACAATGTAACAATTAGAGAAATCAATCAAGCAGTAGTCAAGGCATTGTTAGAATCCGTTTTAGAAGATAAAAGCCTTACGAAACAGTCAATGGTGCAAGAGTTAGACAAGGTCATCTCCAATTTCCTTACTCTGATACTGAATTATATCAAAGGAGCAGATTCACAGATAGACGCCATTACCGCCGCTGAGGACTTTTTCTCAGAAGAGCCCTCACTTGCTGGTATTTTTCCAACATTCCTTCATAAGTTATACGATAAAGATGTATTAGATGAACTCATTATTCTCAAATGGTTTAACGCACCGATATATGCAGAGGACCCTGCAAAAGTGAACGAATTCAAAAAGCTACGTCAGAACGAGCTGATGAAGAGGTTCATAACATGGCtgaaagaagcagaagaagagTCGGACGAAGATTCATCCGATTAG

Transcript

BRAKERKYLT00000016970

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P47823	Translation initiation factor eIF2B subunit epsilon OS=Oryctolagus cuniculus OX=9986 GN=EIF2B5 PE=1 SV=1
Q64350	Translation initiation factor eIF2B subunit epsilon OS=Rattus norvegicus OX=10116 GN=Eif2b5 PE=1 SV=2
Q8CHW4	Translation initiation factor eIF2B subunit epsilon OS=Mus musculus OX=10090 GN=Eif2b5 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004744 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02020 all species →	W2	eIF4-gamma/eIF5/eIF2-epsilon	Repeat	Interproscan
PF00483 all species →	NTP_transferase	Nucleotidyl transferase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR044123 all species →	Domain	Translation initiation factor eIF-2B subunit epsilon, W2 domain	Interproscan
IPR051956 all species →	Family	eIF2B Complex Subunit Epsilon	Interproscan
IPR003307 all species →	Domain	W2 domain	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR005835 all species →	Domain	Nucleotidyl transferase domain	Interproscan
IPR035543 all species →	Domain	Translation initiation factor eIF-2B subunit epsilon, N-terminal	Interproscan
IPR029044 all species →	Homologous_superfamily	Nucleotide-diphospho-sugar transferases	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45887 all species →	TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT EPSILON	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0031369 all species →	Molecular Function	translation initiation factor binding	Interproscan
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0005851 all species →	Cellular Component	eukaryotic translation initiation factor 2B complex	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0009058 all species →	Biological Process	biosynthetic 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03240	EIF2B5; translation initiation factor eIF-2B subunit epsilon	-	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 Mastigias papua 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 Mastigias papua, 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 →