Gene detail

Detailed information of ENSBQFP00000045909 in Heliopora coerulea

Genomic Location: JASJOG010000272.1:179793...203867
NR annotation: XP_028416399.1, eukaryotic translation initiation factor 4 gamma 2-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000051813

ATGcttggaaatattaaatttattgGTGAGCTTGGTAAGCTGGGTTTGCTACACGAGGCTATACTGCACAAGTGTATTAAACAGcttcttgataagaaaaaacgTGCAACCATGGCTGACATATCTGAGGATATGGAATGCTTGTGTCACCTCATGAAGACAGTCGGTTCACAAATTGATGTCGTGAAGGCAAGGCCTTTGATGGATCAATACTTCAATCGAATTCATCATATTCTTGAAAACACGGAACTTCCTTCTCGTATCCGCTTCATGTTGCAAGACATCCTTGAACTCCGGAAGAATAAGTGGATACCAAGACGTGGAGGCCAGGATAACTCAGCACCCAGACCAATACAACAGATCAGGCAGGAAGTACTGCGGggaaagaaaggaagtgTACATCTAGATCGTGTCGTCATGTTTCCTGGTGACCCAGCGTTCTCATATGGTCAGCGGCAGAAGAGAGGCTATAACAGACCATCTAGTCGTGGCTTTGACGATGTTTTCATGACAGACCCAGGTTTTGATTCTTTTCTCCCAGTTGACGACTTTGATCACTTGCGCATGAGTGATAGTCTCTTCGGCGGGCAGTCTTTCACTGGGAGATTCGATGATCTCCCGTCTGTCCGACCGTTCAGAGATGACGTCCCTTACTTCAGCTCAATGAGACACAGAAACAGTCCTCCCGACTTCATGCCCAGTTATCAAACTGGATTGAAAAAAACCCAGCAACAGCCCAACGAAGGACGCCCACGAAGAGTTGCACAAAAAACTCAACGACCCACTACTGATGGCGAGATCAGTCTTCGTCCTGCCCGTGAATCTATTGTTGCTCAAGCATCCGTTCCTCCTGGTCGTGCTGGAACTCCTCCGTTCTTATCAAATCAAACTAAAACTACGTCTAATTTTTCAGATCGCTCTCCAGATTTAGTTAgatctgataaatcaaaattggtcaaaaaaacGCCGGCAGTGCCGAAGGTGGAAACTGAGAAAGCAATGGTGTCGATAACAGAAGAGTTCCTTAAGTCGAGAAACGTGACTGAAACCATCAAGAATATTAAAGAGTTGAACTATCCACAGTGCAAGGACTGCTTTGTCTCGAAGTTCCTTGAAATCGTCATTCAGAAGTCAGATGATGACCAAAGTGCTGCTGCCCAACTCCTCGTGGAGTCGTTTGAAGCAAAAGTAATGACAAAAGAAGTTATAAGAAAGGGATTTGATTCGTTTATCAGTAAGCTGAGTACTCCTGGAAGCGAATCAGATCTGGTGAGAATTTGTTTGGCTAAACTTGCTGCAAAGCTTGTGGTTAAGGATGTGTTTGACTTAGAACTCGTCAGTAGAGCTATGGAACCGGTAGACCTATTGTTCCTTCAGTGTTTGAAACAAGTCAAAGAGGACAAAGGAGAGGACTGGCTACGTGAGGCttttgataaaagtaaaataaacttGATGAACGCTTTGCCAGAAGCAAGTCGGAATAGCGAGAAAATGGCAGAGATTTTACTACAGGAAgatttaatttttctttcaccGTTGTTGAAAGCCCAAACTGACTTACTCACACAAATTCAAACTGACTCAAATGTTTCCTCTCTGTATAAATGGATCAAGGATAATGTCGATGTCAAATTGCACTCAAGTCCAGCGTTCGTCAATGTTTTAACGACGTGCGTTCTGAAATACGTTACTATGACTACCAGCTTATCTCCTGATATTGACCGTTCTCAACCTCCGGACAAACATGTTCAAGATCAAGAGAAATCAGCCATGGAAAATCTGAAGCCTTTGTTGCAGAAGTTTTTACACGATAACGTACAACTGCAGGTCAGCGCATTGTATGCCTTGCAAGTGTTTTGTCATTGCAATGATTTTCCAAAAGGTTTACTACTGCGGATGTTCGTAATGTTGTACGATTTTGAAATTATCGAAGAAGACGCTTTTATTTCGTGGAAAGAAGACGTAAATGACGAACATCCAGGAAAGGGACGCGCCCTTTTCCAGGTCAATTCATGGTTGACATGGTTGGAAACAGCTGCAGAAGAGAGCTCAGAGTCCGAACCTGAGTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P79398	Eukaryotic translation initiation factor 4 gamma 2 OS=Oryctolagus cuniculus OX=9986 GN=EIF4G2 PE=2 SV=1
Q95L46	Eukaryotic translation initiation factor 4 gamma 2 OS=Bos taurus OX=9913 GN=EIF4G2 PE=2 SV=2
P78344	Eukaryotic translation initiation factor 4 gamma 2 OS=Homo sapiens OX=9606 GN=EIF4G2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005957 (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
PF02847 all species →	MA3	MA3 domain	Repeat	Interproscan
PF02854 all species →	MIF4G	MIF4G domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR003307 all species →	Domain	W2 domain	Interproscan
IPR003891 all species →	Domain	Initiation factor eIF-4 gamma, MA3	Interproscan
IPR045208 all species →	Family	Initiation factor 4G	Interproscan
IPR003890 all species →	Domain	MIF4G-like, type 3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23253 all species →	EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0003743 all species →	Molecular Function	translation initiation factor activity	Interproscan
GO:0016281 all species →	Cellular Component	eukaryotic translation initiation factor 4F complex	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	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
K03260	EIF4G; translation initiation factor 4G	-	Translation factors	ko03012	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000045909 across 37 RNA-seq samples of Heliopora coerulea. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

37Samples

35TPM > 0

6Conditions

235.0Max TPM

118.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	134.18	234.99
polyp and skeleton · 31C, 3week	6	6	93.30	121.77
polyp and skeleton · 28C, 3week	6	6	131.28	202.42
polyp and skeleton · 26C, 3week	4	3	102.76	183.45
polyp and skeleton · 28C, 24hr	2	2	92.21	96.61
polyp and skeleton · 31C, 24hr	2	1	79.20	158.39

Per sample · hover a bar for the full sample record

Show the sample table (37 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	234.99
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	157.38
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	156.44
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	150.88
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	149.04
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	148.81
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	144.45
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	138.84
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	130.96
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	125.94
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	117.73
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	114.58
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	110.61
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	104.10
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	103.76
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	103.26
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	89.33
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	121.77
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	111.21
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	106.94
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	99.19
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	65.88
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	54.79
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	202.42
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	160.32
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	148.26
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	93.26
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	92.76
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	90.65
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	183.45
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	134.69
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	92.89
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	0.00
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	96.61
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	87.82
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	158.39
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	0.00

Source: CnidoSite RNA-seq expression matrices (HCOER_TPM, StringTie quantification over 37 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.

Co-expression network

Genes whose expression across the transcriptome samples of Heliopora coerulea 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.

Direction	Partners	Most correlated partner	PCC
Positively correlated	1	ENSBQFP00000000192	0.724687401729002
Negatively correlated	98	ENSBQFP00000043378	-0.766360704851658

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Heliopora coerulea, 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.	ready	open →
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 →