Gene detail

Detailed information of ENSBQFP00000010813.1 in Heliopora coerulea

Genomic Location: JASJOG010000016.1:180507...243902
NR annotation: XP_028405444.1, GTPase-activating protein-like [Dendronephthya gigantea]
Species Heliopora coerulea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSBQFT00000011996

ATGACAGATAAAGTAGCAAGTGTCCGTAAGCAACTACAAGATCTTAAAGCACAAATTTCACAGCAAAGTAAACGAAACTTTGAATTGGACAGAGATGTTCGCTTCTTTGACAAACGAATAGCGTTACTTATCAATCACCGAATATCTGTTGAGGAGCTGTCCAATAGGATTGATCAACGATGCAAGAGAGTTGGTGTGATAAAGGATGAACTGGAAAGACAGGTATTTGGACAGCTTTTATATTTGTTACAAACTGAGCCCTACTATGTAGCGCAGCTGACTAGATCAGTGTCATTAAACGAAATAGATGATCTTTTAGAAACTGTTATGTTCTCCCTTTATGGAAACCAATATGAAGAAAGGGAAGAACACCTTCTACTTTGCATGTTTGAGcTTGCTTTAAAGTATGAGTTTGACGAAGCTGATGGATTTAATAATGTCCTTAGAGCAAATACTGCTGTTTCACGAATGATGGCATCTTATACTAGACGTGGACCTGGCCAGGAATATTTGAAAGAGACACTGGAAGCTCCAATTCGGTCTGTCATAGAGGAAACTGATCTTGACTTGGAAATTAACCCAATGAAGGTTTATGCTGCCTTGTATGACTTGGATAAAGACGATCTAGGGATTGTATCAGCGGAGCAGATCTCAGATGACCGTAAAGTTCAAGCAACTATTGAAATTCGATTGAAAAAGCTTGAGAAGTTGGCAGAAACCTTTTTAAATATTATGGAATGTTCCGTCGAAAAAGTTCCTTTTGGAATTAGATGGATTTGCTTCACTGTGAAAAAGCTGGCAGTGGAAAAATTTCCCAATTTATTCCAAGATTTTGATTTAACCAGAAATAAGTCATGTGACGACAGAATCTGTTCTTTAATTGGAGGATTTTTCCTCTTGAGGTTTATTAACCCAGCCATTGTTTCTCCTCATGTGTACATGCTGATAAGCAAGCAACCTAATTCTACAATGAAAAGGAATTTAGTGCTGATTGCAAAGATTATCCAACACACCGCAAATGTTTCTTCGGGGAAAACGCACTTTAAAGAGGATTATATGCAACCTCTACAAACATTCGTGGAAAAGCACAAAAAGCAATTATGCAGTTTTCTGAATGATTTATGTAATGTGCCACCTTTCTACAGTTCTTTAGAGATGGAGCTATATATGGGTCTTTCAAAGGATACTCAAATTAGCATAACTTTAAACCAAATCCATCATATTCATAAATTGTTGCTCAAATATAAACAAGATCTGGGTCTTACAGAAGATGATCCACTGAACACCATATTAAGCGACATGGTTGCGCCCAGACAAGAGTGTAACTATCACGAAAATTTCTCTATCACATTGACACTAAAAAGCCGATGGGAACAAGTTCCAGTTGTGCGTTCAGAATCCTTAGAATCTACTTTGGCTCGAAAGATTGATAACAGTGCTCAGCGAAGTCAGTGGAAGAAGCTCTTGGCCGAATTATTTAGTATGagGCCAGAACTGCTTTTAGAACAGACATTGATGTCCGCACTTATAGAAGCTGTTAATTTGCCTGATAGCGAAACTGCGGTGTCAGCGTTATCCAAATTTTTGCTGCAAAAATGCGAACACATTCAACAAGCTGGCCCACCATTTCTGGAGGATGATGATTTTTATGAAGAAGTTAAGGTGGAGGTTCATTCAAAACTCCACCAGTTTGATAATCTTTGCGTTCAATTAGAAAGTTTACAGAGAGTTTACAAGACGATCTGCGATCACAAAAACTTCTTGGAAGAACAACTGGTTGCTTATAAAGAGTATTTAGAGGTAGTCAGAGAACGAGCAGCCTCGAAGGACGGAGGTCTTGTTCAGGTCACTCGTCAGAAGTCTACTGGTTCGGTGAAGTTCTCGTTTTCTCAGTTGGAAAAGGACGGTGTTATCATAGAATGTCACGATGTTGCCGATAAACGCAAATCAAATCTGTTTTTCACGATAAAAAGTCCCTCTCGTGGTATATACAAAGTTGCTTTGTTATCAAAAGATTGTCCTGGCGTGACTCTTGCACAAGCTGAACTACGTCTCGAAGAATTACTTGAGTTGCAGTACCTTCGACATCCTGTATTAAACTTGAATGAATCTGTGCTGCTTGATGTTCGACGGACCATGTTGTTGCTTCATAAACACTTCAATACGTCGTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P33277	GTPase-activating protein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=gap1 PE=4 SV=1
O00899	Ras GTPase-activating-like protein gapA OS=Dictyostelium discoideum OX=44689 GN=gapA PE=1 SV=1
Q54K32	Ras GTPase-activating-like protein rgaA OS=Dictyostelium discoideum OX=44689 GN=rgaA PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002537 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00616 all species →	RasGAP	GTPase-activator protein for Ras-like GTPase	Family	Interproscan
PF03836 all species →	RasGAP_C	RasGAP C-terminus	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008936 all species →	Homologous_superfamily	Rho GTPase activation protein	Interproscan
IPR001936 all species →	Domain	Ras GTPase-activating domain	Interproscan
IPR000593 all species →	Domain	RasGAP protein, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14149 all species →	RAS GTPASE-ACTIVATING PROTEIN WITH IQ MOTIF	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0043087 all species →	Biological Process	regulation of GTPase activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005938 all species →	Cellular Component	cell cortex	Interproscan
GO:0046580 all species →	Biological Process	negative regulation of Ras protein signal transduction	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

No KEGG orthology assignment for ENSBQFP00000010813.1.

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

Expression pattern (RNA-seq)

Transcript abundance of ENSBQFP00000010813.1 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

36TPM > 0

6Conditions

90.3Max TPM

29.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
Whole coral	17	17	29.13	43.45
polyp and skeleton · 31C, 3week	6	6	20.62	30.75
polyp and skeleton · 28C, 3week	6	5	15.99	28.60
polyp and skeleton · 26C, 3week	4	4	54.77	90.32
polyp and skeleton · 28C, 24hr	2	2	28.60	32.68
polyp and skeleton · 31C, 24hr	2	2	52.48	79.62

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
ERR6178782	Whole coral	Whole coral	not recorded	not recorded	ERP120267	43.45
ERR6178772	Whole coral	Whole coral	not recorded	not recorded	ERP120267	43.27
ERR6178781	Whole coral	Whole coral	not recorded	not recorded	ERP120267	39.62
ERR6178779	Whole coral	Whole coral	not recorded	not recorded	ERP120267	38.88
ERR6178777	Whole coral	Whole coral	not recorded	not recorded	ERP120267	38.20
ERR6178780	Whole coral	Whole coral	not recorded	not recorded	ERP120267	37.38
ERR6178776	Whole coral	Whole coral	not recorded	not recorded	ERP120267	31.09
ERR6178387	Whole coral	Whole coral	not recorded	not recorded	ERP120267	30.14
ERR6178770	Whole coral	Whole coral	not recorded	not recorded	ERP120267	29.54
ERR6178389	Whole coral	Whole coral	not recorded	not recorded	ERP120267	27.25
ERR6178783	Whole coral	Whole coral	not recorded	not recorded	ERP120267	24.84
ERR6178773	Whole coral	Whole coral	not recorded	not recorded	ERP120267	23.52
ERR6178388	Whole coral	Whole coral	not recorded	not recorded	ERP120267	23.01
ERR6178778	Whole coral	Whole coral	not recorded	not recorded	ERP120267	21.31
ERR6178774	Whole coral	Whole coral	not recorded	not recorded	ERP120267	18.00
ERR6178771	Whole coral	Whole coral	not recorded	not recorded	ERP120267	13.18
ERR6178775	Whole coral	Whole coral	not recorded	not recorded	ERP120267	12.45
SRR12578066	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	30.75
SRR12587800	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	25.40
SRR12587804	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	22.37
SRR12578065	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	18.48
SRR12587799	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	15.08
SRR12578068	polyp and skeleton · 31C, 3week	polyp and skeleton	not recorded	31C, 3week	SRP115860	11.65
SRR12587802	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	28.60
SRR12587808	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	19.00
SRR12587807	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	18.23
SRR5949849	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	16.52
SRR12587803	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	13.56
SRR12578067	polyp and skeleton · 28C, 3week	polyp and skeleton	not recorded	28C, 3week	SRP115860	0.00
SRR12587806	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	90.32
SRR12587801	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	74.13
SRR12587805	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	27.46
SRR12587798	polyp and skeleton · 26C, 3week	polyp and skeleton	not recorded	26C, 3week	SRP115860	27.17
SRR5949850	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	32.68
SRR12578063	polyp and skeleton · 28C, 24hr	polyp and skeleton	not recorded	28C, 24hr	SRP115860	24.51
SRR5949848	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	79.62
SRR12578064	polyp and skeleton · 31C, 24hr	polyp and skeleton	not recorded	31C, 24hr	SRP115860	25.34

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	18	ENSBQFP00000009896	0.864470754438394
Negatively correlated	17	ENSBQFP00000023684	-0.680631082104639

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. Partner counts were matched on ENSBQFP00000010813, the spelling this network uses.

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 →